2022-05-20T08:44:17,892 Created temporary directory: /tmp/pip-ephem-wheel-cache-5apd8y0_
2022-05-20T08:44:17,897 Created temporary directory: /tmp/pip-build-tracker-vojjn97k
2022-05-20T08:44:17,898 Initialized build tracking at /tmp/pip-build-tracker-vojjn97k
2022-05-20T08:44:17,899 Created build tracker: /tmp/pip-build-tracker-vojjn97k
2022-05-20T08:44:17,899 Entered build tracker: /tmp/pip-build-tracker-vojjn97k
2022-05-20T08:44:17,900 Created temporary directory: /tmp/pip-wheel-s0gmecn4
2022-05-20T08:44:17,970 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple
2022-05-20T08:44:17,979 2 location(s) to search for versions of viennarna:
2022-05-20T08:44:17,979 * https://pypi.org/simple/viennarna/
2022-05-20T08:44:17,979 * https://www.piwheels.org/simple/viennarna/
2022-05-20T08:44:17,980 Fetching project page and analyzing links: https://pypi.org/simple/viennarna/
2022-05-20T08:44:17,981 Getting page https://pypi.org/simple/viennarna/
2022-05-20T08:44:17,985 Found index url https://pypi.org/simple
2022-05-20T08:44:18,090   Found link https://files.pythonhosted.org/packages/77/72/75bb8baeebb7112f80e8561a3e31edef5d108309900e6cc409d4ced943cf/ViennaRNA-2.5.0a5.tar.gz#sha256=8a1eb6ea38a4bcc69129be4a66a548982babb7ffddcf28adeafebcf0a765e080 (from https://pypi.org/simple/viennarna/), version: 2.5.0a5
2022-05-20T08:44:18,091 Fetching project page and analyzing links: https://www.piwheels.org/simple/viennarna/
2022-05-20T08:44:18,092 Getting page https://www.piwheels.org/simple/viennarna/
2022-05-20T08:44:18,094 Found index url https://www.piwheels.org/simple
2022-05-20T08:44:18,314 Skipping link: not a file: https://www.piwheels.org/simple/viennarna/
2022-05-20T08:44:18,314 Skipping link: not a file: https://pypi.org/simple/viennarna/
2022-05-20T08:44:18,349 Given no hashes to check 1 links for project 'viennarna': discarding no candidates
2022-05-20T08:44:18,378 Collecting viennarna==2.5.0a5
2022-05-20T08:44:18,382   Created temporary directory: /tmp/pip-unpack-5mql3kec
2022-05-20T08:44:18,476   Downloading ViennaRNA-2.5.0a5.tar.gz (58.0 MB)
2022-05-20T08:45:32,436   Added viennarna==2.5.0a5 from https://files.pythonhosted.org/packages/77/72/75bb8baeebb7112f80e8561a3e31edef5d108309900e6cc409d4ced943cf/ViennaRNA-2.5.0a5.tar.gz#sha256=8a1eb6ea38a4bcc69129be4a66a548982babb7ffddcf28adeafebcf0a765e080 to build tracker '/tmp/pip-build-tracker-vojjn97k'
2022-05-20T08:45:32,442   Running setup.py (path:/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/setup.py) egg_info for package viennarna
2022-05-20T08:45:32,443   Created temporary directory: /tmp/pip-pip-egg-info-p7wvd0en
2022-05-20T08:45:32,443   Preparing metadata (setup.py): started
2022-05-20T08:45:32,445   Running command python setup.py egg_info
2022-05-20T08:45:38,521   running egg_info
2022-05-20T08:45:38,526   creating /tmp/pip-pip-egg-info-p7wvd0en/ViennaRNA.egg-info
2022-05-20T08:45:39,167   writing /tmp/pip-pip-egg-info-p7wvd0en/ViennaRNA.egg-info/PKG-INFO
2022-05-20T08:45:39,765   writing dependency_links to /tmp/pip-pip-egg-info-p7wvd0en/ViennaRNA.egg-info/dependency_links.txt
2022-05-20T08:45:43,349   writing top-level names to /tmp/pip-pip-egg-info-p7wvd0en/ViennaRNA.egg-info/top_level.txt
2022-05-20T08:45:43,352   writing manifest file '/tmp/pip-pip-egg-info-p7wvd0en/ViennaRNA.egg-info/SOURCES.txt'
2022-05-20T08:45:44,102   reading manifest file '/tmp/pip-pip-egg-info-p7wvd0en/ViennaRNA.egg-info/SOURCES.txt'
2022-05-20T08:45:44,105   reading manifest template 'MANIFEST.in'
2022-05-20T08:45:46,032   warning: no previously-included files matching '*.py[cod]' found anywhere in distribution
2022-05-20T08:45:46,034   adding license file 'LICENSE'
2022-05-20T08:45:46,884   writing manifest file '/tmp/pip-pip-egg-info-p7wvd0en/ViennaRNA.egg-info/SOURCES.txt'
2022-05-20T08:45:47,136   Preparing metadata (setup.py): finished with status 'done'
2022-05-20T08:45:47,148   Source in /tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933 has version 2.5.0a5, which satisfies requirement viennarna==2.5.0a5 from https://files.pythonhosted.org/packages/77/72/75bb8baeebb7112f80e8561a3e31edef5d108309900e6cc409d4ced943cf/ViennaRNA-2.5.0a5.tar.gz#sha256=8a1eb6ea38a4bcc69129be4a66a548982babb7ffddcf28adeafebcf0a765e080
2022-05-20T08:45:47,151   Removed viennarna==2.5.0a5 from https://files.pythonhosted.org/packages/77/72/75bb8baeebb7112f80e8561a3e31edef5d108309900e6cc409d4ced943cf/ViennaRNA-2.5.0a5.tar.gz#sha256=8a1eb6ea38a4bcc69129be4a66a548982babb7ffddcf28adeafebcf0a765e080 from build tracker '/tmp/pip-build-tracker-vojjn97k'
2022-05-20T08:45:47,161 Created temporary directory: /tmp/pip-unpack-8tv3ulim
2022-05-20T08:45:47,162 Building wheels for collected packages: viennarna
2022-05-20T08:45:47,172   Created temporary directory: /tmp/pip-wheel-f5x0n8y1
2022-05-20T08:45:47,173   Building wheel for viennarna (setup.py): started
2022-05-20T08:45:47,174   Destination directory: /tmp/pip-wheel-f5x0n8y1
2022-05-20T08:45:47,175   Running command python setup.py bdist_wheel
2022-05-20T08:45:52,411   running bdist_wheel
2022-05-20T08:45:52,553   running build
2022-05-20T08:45:52,554   running build_py
2022-05-20T08:45:53,184   creating build
2022-05-20T08:45:53,185   creating build/lib
2022-05-20T08:45:53,186   creating build/lib/ViennaRNA
2022-05-20T08:45:53,188   copying ./ViennaRNA/__init__.py -> build/lib/ViennaRNA
2022-05-20T08:45:53,193   /usr/local/lib/python3.7/dist-packages/setuptools/command/install.py:37: SetuptoolsDeprecationWarning: setup.py install is deprecated. Use build and pip and other standards-based tools.
2022-05-20T08:45:53,194     setuptools.SetuptoolsDeprecationWarning,
2022-05-20T08:45:53,822   installing to build/bdist.linux-armv7l/wheel
2022-05-20T08:45:53,822   running install
2022-05-20T08:45:55,324   checking for gcc... gcc
2022-05-20T08:45:55,993   checking whether the C compiler works... yes
2022-05-20T08:45:55,995   checking for C compiler default output file name... a.out
2022-05-20T08:45:56,342   checking for suffix of executables...
2022-05-20T08:45:56,761   checking whether we are cross compiling... no
2022-05-20T08:45:56,960   checking for suffix of object files... o
2022-05-20T08:45:57,139   checking whether the compiler supports GNU C... yes
2022-05-20T08:45:57,322   checking whether gcc accepts -g... yes
2022-05-20T08:45:57,702   checking for gcc option to enable C11 features... none needed
2022-05-20T08:45:58,027   checking whether gcc understands -c and -o together... yes
2022-05-20T08:45:58,240   checking for stdio.h... yes
2022-05-20T08:45:58,507   checking for stdlib.h... yes
2022-05-20T08:45:58,782   checking for string.h... yes
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2022-05-20T08:45:59,647   checking for strings.h... yes
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2022-05-20T08:46:01,940   checking for a BSD-compatible install... /usr/bin/install -c
2022-05-20T08:46:01,974   checking whether build environment is sane... yes
2022-05-20T08:46:02,057   checking for a race-free mkdir -p... /usr/bin/mkdir -p
2022-05-20T08:46:02,064   checking for gawk... gawk
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2022-05-20T08:46:02,266   checking whether make supports the include directive... yes (GNU style)
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2022-05-20T08:46:03,647   checking host system type... armv7l-unknown-linux-gnueabihf
2022-05-20T08:46:03,656   checking for g++... g++
2022-05-20T08:46:04,054   checking whether the compiler supports GNU C++... yes
2022-05-20T08:46:04,253   checking whether g++ accepts -g... yes
2022-05-20T08:46:04,861   checking for g++ option to enable C++11 features... none needed
2022-05-20T08:46:05,237   checking dependency style of g++... gcc3
2022-05-20T08:46:05,471   checking how to run the C++ preprocessor... g++ -E
2022-05-20T08:46:05,705   checking for gcc... (cached) gcc
2022-05-20T08:46:05,962   checking whether the compiler supports GNU C... (cached) yes
2022-05-20T08:46:05,966   checking whether gcc accepts -g... (cached) yes
2022-05-20T08:46:05,970   checking for gcc option to enable C11 features... (cached) none needed
2022-05-20T08:46:05,976   checking whether gcc understands -c and -o together... (cached) yes
2022-05-20T08:46:06,197   checking how to run the C preprocessor... gcc -E
2022-05-20T08:46:06,423   checking for ar... ar
2022-05-20T08:46:06,653   checking the archiver (ar) interface... ar
2022-05-20T08:46:06,678   checking whether make sets $(MAKE)... (cached) yes
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2022-05-20T08:46:07,819   checking for BSD- or MS-compatible name lister (nm)... /usr/bin/nm -B
2022-05-20T08:46:08,045   checking the name lister (/usr/bin/nm -B) interface... BSD nm
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2022-05-20T08:46:08,156   checking for dlltool... no
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2022-05-20T08:46:09,155   checking command to parse /usr/bin/nm -B output from gcc object... ok
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2022-05-20T08:46:10,894   checking for gcc option to produce PIC... -fPIC -DPIC
2022-05-20T08:46:11,108   checking if gcc PIC flag -fPIC -DPIC works... yes
2022-05-20T08:46:11,889   checking if gcc static flag -static works... yes
2022-05-20T08:46:12,187   checking if gcc supports -c -o file.o... yes
2022-05-20T08:46:12,190   checking if gcc supports -c -o file.o... (cached) yes
2022-05-20T08:46:12,275   checking whether the gcc linker (/usr/bin/ld) supports shared libraries... yes
2022-05-20T08:46:12,633   checking whether -lc should be explicitly linked in... no
2022-05-20T08:46:13,262   checking dynamic linker characteristics... GNU/Linux ld.so
2022-05-20T08:46:13,264   checking how to hardcode library paths into programs... immediate
2022-05-20T08:46:13,293   checking whether stripping libraries is possible... yes
2022-05-20T08:46:13,295   checking if libtool supports shared libraries... yes
2022-05-20T08:46:13,298   checking whether to build shared libraries... yes
2022-05-20T08:46:13,300   checking whether to build static libraries... yes
2022-05-20T08:46:13,341   checking how to run the C++ preprocessor... g++ -E
2022-05-20T08:46:14,484   checking for ld used by g++... /usr/bin/ld
2022-05-20T08:46:14,506   checking if the linker (/usr/bin/ld) is GNU ld... yes
2022-05-20T08:46:14,570   checking whether the g++ linker (/usr/bin/ld) supports shared libraries... yes
2022-05-20T08:46:15,419   checking for g++ option to produce PIC... -fPIC -DPIC
2022-05-20T08:46:15,655   checking if g++ PIC flag -fPIC -DPIC works... yes
2022-05-20T08:46:16,370   checking if g++ static flag -static works... yes
2022-05-20T08:46:16,679   checking if g++ supports -c -o file.o... yes
2022-05-20T08:46:16,681   checking if g++ supports -c -o file.o... (cached) yes
2022-05-20T08:46:16,684   checking whether the g++ linker (/usr/bin/ld) supports shared libraries... yes
2022-05-20T08:46:16,730   checking dynamic linker characteristics... (cached) GNU/Linux ld.so
2022-05-20T08:46:16,732   checking how to hardcode library paths into programs... immediate
2022-05-20T08:46:17,205   checking for exp in -lm... yes
2022-05-20T08:46:17,218   ./configure: line 14526: #include: command not found
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2022-05-20T08:46:27,712   checking for memmove... yes
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2022-05-20T08:46:29,685   checking for pkg-config... /usr/bin/pkg-config
2022-05-20T08:46:29,720   checking pkg-config is at least version 0.9.0... yes
2022-05-20T08:46:31,193   checking for C compiler vendor... gnu
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2022-05-20T08:46:31,618   checking whether C++ compiler accepts -fno-strict-aliasing... yes
2022-05-20T08:46:32,043   checking whether the linker accepts -fno-strict-aliasing... yes
2022-05-20T08:46:32,545   checking whether the C compiler allows unnamed unions of unnamed structs... yes
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2022-05-20T08:46:34,153   checking whether C++ compiler accepts -ffat-lto-objects... yes
2022-05-20T08:46:34,156   configure: WARNING: Trying to re-set ar/ranlib/nm to compiler specific wrappers
2022-05-20T08:46:34,163   checking for gcc-ar... gcc-ar
2022-05-20T08:46:34,170   checking for gcc-ranlib... gcc-ranlib
2022-05-20T08:46:34,177   checking for gcc-nm... gcc-nm
2022-05-20T08:46:35,121   checking whether the linker supports Link time Optimization (LTO)... yes
2022-05-20T08:46:35,128   checking for ./src/libsvm-3.25/svm.cpp... yes
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2022-05-20T08:46:35,814   configure: WARNING: "Can't find libgsl. Falling back to default implementation."
2022-05-20T08:46:36,329   checking for OpenMP flag of C compiler... -fopenmp
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2022-05-20T08:46:37,735   checking whether pthreads work with "-pthread" and "-lpthread"... yes
2022-05-20T08:46:38,219   checking for joinable pthread attribute... PTHREAD_CREATE_JOINABLE
2022-05-20T08:46:38,222   checking whether more special flags are required for pthreads... no
2022-05-20T08:46:38,714   checking for PTHREAD_PRIO_INHERIT... yes
2022-05-20T08:46:38,867   checking compiler support for AVX 512 instructions... no
2022-05-20T08:46:38,989   checking compiler support for SSE 4.1 instructions... no
2022-05-20T08:46:39,206   checking whether C compiler accepts -ftree-vectorize... yes
2022-05-20T08:46:39,559   checking for mpfr.h... no
2022-05-20T08:46:39,561   configure: WARNING:
2022-05-20T08:46:39,562   ==========================
2022-05-20T08:46:39,562   Failed to find mpfr.h!

2022-05-20T08:46:39,563   You probably need to install the mpfr-devel package or similar
2022-05-20T08:46:39,563   ==========================

2022-05-20T08:46:39,643   checking for ./interfaces/Makefile.am... yes
2022-05-20T08:46:39,655   checking for swig... /usr/bin/swig
2022-05-20T08:46:39,749   checking SWIG version... 3.0.12
2022-05-20T08:46:40,000   configure: WARNING: SWIG version >= 4.0.2 is required.  You have 3.0.12.
2022-05-20T08:46:40,013   checking for ./interfaces/Python2/Makefile.am... yes
2022-05-20T08:46:40,016   checking for ./interfaces/Python2/RNA_wrap.cpp... yes
2022-05-20T08:46:40,019   checking for ./interfaces/Python2/RNA.py... yes
2022-05-20T08:46:40,030   checking for python2... /usr/bin/python2
2022-05-20T08:46:40,813   checking for Python2 include path... /usr/include/python2.7
2022-05-20T08:46:40,820   checking for /usr/include/python2.7/Python.h... yes
2022-05-20T08:46:40,822   checking for Python2 ldflags...
2022-05-20T08:46:40,946   checking for Python2 extension linker... arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -Wdate-time -D_FORTIFY_SOURCE=2 -g -fdebug-prefix-map=/build/python2.7-InigCj/python2.7-2.7.16=. -fstack-protector-strong -Wformat -Werror=format-security
2022-05-20T08:46:41,069   checking for directory to install Python2 scripts in... ${prefix}/lib/python2.7/site-packages
2022-05-20T08:46:41,194   checking for directory to install architecture dependent python2 things in... ${exec_prefix}/lib/python2.7/site-packages
2022-05-20T08:46:41,318   checking for Python2 module extension... .so
2022-05-20T08:46:41,324   checking for ./interfaces/Python/Makefile.am... yes
2022-05-20T08:46:41,328   checking for ./interfaces/Python/RNA_wrap.cpp... yes
2022-05-20T08:46:41,331   checking for ./interfaces/Python/RNA.py... yes
2022-05-20T08:46:41,342   checking for python3... /usr/bin/python3
2022-05-20T08:46:45,593   checking for Python3 include path... /usr/include/python3.7m
2022-05-20T08:46:45,596   checking for /usr/include/python3.7m/Python.h... yes
2022-05-20T08:46:45,598   checking for Python3 ldflags...
2022-05-20T08:46:47,638   checking for Python3 extension linker... arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions  -Wl,-z,relro
2022-05-20T08:46:47,640   checking for directory to install Python3 scripts in... /usr/lib/python3.7/dist-packages
2022-05-20T08:46:47,643   checking for directory to install architecture dependent python3 things in... /usr/lib/python3.7/dist-packages
2022-05-20T08:46:49,744   checking for Python3 module extension... .cpython-37m-arm-linux-gnueabihf.so
2022-05-20T08:46:49,858   checking for Python3 tag for cached compiled scripts... cpython-37
2022-05-20T08:46:50,023   checking for Python3 extension of cached and optimized bytecode... cpython-37.opt-1.pyc
2022-05-20T08:46:50,034   checking for doxygen... no
2022-05-20T08:46:50,040   checking for dot... no
2022-05-20T08:46:50,047   checking for egrep... /usr/bin/egrep
2022-05-20T08:46:50,052   checking for perl... /usr/bin/perl
2022-05-20T08:46:50,068   checking for htlatex... no
2022-05-20T08:46:50,221   checking for CHECK... no
2022-05-20T08:46:50,262   configure: WARNING: check not found -- will not build C-library Unit tests
2022-05-20T08:46:50,267   checking for diff... /usr/bin/diff
2022-05-20T08:46:50,276   checking for xxd... /usr/bin/xxd
2022-05-20T08:46:50,283   checking for gengetopt... no
2022-05-20T08:46:50,289   checking for help2man... no
2022-05-20T08:46:51,689   checking whether g++ supports C++11 features with -std=c++11... yes
2022-05-20T08:46:51,695   checking for ./src/dlib-19.22/dlib/all/source.cpp... yes
2022-05-20T08:46:52,082   checking that generated files are newer than configure... done
2022-05-20T08:46:52,093   configure: creating ./config.status
2022-05-20T08:46:58,928   config.status: creating packaging/macosx/Makefile
2022-05-20T08:46:59,096   config.status: creating packaging/macosx/Distribution.xml
2022-05-20T08:46:59,264   config.status: creating packaging/macosx/resources/welcome.txt
2022-05-20T08:46:59,430   config.status: creating interfaces/Python2/Makefile
2022-05-20T08:46:59,593   config.status: creating interfaces/Python2/version.i
2022-05-20T08:46:59,759   config.status: creating interfaces/Python/Makefile
2022-05-20T08:46:59,928   config.status: creating interfaces/Python/version.i
2022-05-20T08:47:00,095   config.status: creating tests/Makefile
2022-05-20T08:47:00,271   config.status: creating tests/RNApath.py
2022-05-20T08:47:00,434   config.status: creating tests/RNAHelpers.pm
2022-05-20T08:47:00,597   config.status: creating tests/test-env.sh
2022-05-20T08:47:00,762   config.status: creating src/ViennaRNA/static/templates_postscript.h
2022-05-20T08:47:00,928   config.status: creating src/ViennaRNA/static/templates_svg.h
2022-05-20T08:47:01,091   config.status: creating src/ViennaRNA/static/energy_parameter_sets.h
2022-05-20T08:47:01,262   config.status: creating src/ViennaRNA/vrna_config.h
2022-05-20T08:47:01,429   config.status: creating misc/Makefile
2022-05-20T08:47:01,590   config.status: creating interfaces/Makefile
2022-05-20T08:47:01,751   config.status: creating Makefile
2022-05-20T08:47:01,879   config.status: creating RNAlib2.pc
2022-05-20T08:47:02,005   config.status: creating src/Utils/Makefile
2022-05-20T08:47:02,172   config.status: creating src/bin/Makefile
2022-05-20T08:47:02,342   config.status: creating src/Makefile
2022-05-20T08:47:02,507   config.status: creating src/ViennaRNA/Makefile
2022-05-20T08:47:02,703   config.status: creating src/ViennaRNA/static/Makefile
2022-05-20T08:47:02,866   config.status: creating man/Makefile
2022-05-20T08:47:03,031   config.status: creating doc/Makefile
2022-05-20T08:47:03,198   config.status: creating doc/CLA/Makefile
2022-05-20T08:47:03,361   config.status: creating RNA-Tutorial/Makefile
2022-05-20T08:47:03,527   config.status: creating man/cmdlopt.sh
2022-05-20T08:47:03,700   config.status: creating examples/Makefile
2022-05-20T08:47:03,861   config.status: creating packaging/viennarna.spec
2022-05-20T08:47:04,031   config.status: creating packaging/PKGBUILD
2022-05-20T08:47:04,198   config.status: creating packaging/win_installer_archlinux_i686.nsi
2022-05-20T08:47:04,364   config.status: creating packaging/win_installer_archlinux_x86_64.nsi
2022-05-20T08:47:04,533   config.status: creating packaging/win_installer_fedora_i686.nsi
2022-05-20T08:47:04,701   config.status: creating packaging/win_installer_fedora_x86_64.nsi
2022-05-20T08:47:04,878   config.status: creating config.h
2022-05-20T08:47:04,974   config.status: executing depfiles commands
2022-05-20T08:47:13,332   config.status: executing libtool commands
2022-05-20T08:47:13,586   configure:

2022-05-20T08:47:13,587   ======================================
2022-05-20T08:47:13,587       ViennaRNA Package 2.5.0
2022-05-20T08:47:13,588   ======================================

2022-05-20T08:47:13,588   Successfully configured with the following options:

2022-05-20T08:47:13,589   Sub Packages
2022-05-20T08:47:13,589   ------------
2022-05-20T08:47:13,589     * Kinfold                   : no
2022-05-20T08:47:13,590     * RNAforester               : no
2022-05-20T08:47:13,590     * Analyse{Dists,Seqs}       : no
2022-05-20T08:47:13,590     * RNAlocmin                 : no
2022-05-20T08:47:13,590     * Kinwalker                 : no

2022-05-20T08:47:13,591   Extra Libraries
2022-05-20T08:47:13,591   ---------------
2022-05-20T08:47:13,592     * Support Vector Machine    : yes
2022-05-20T08:47:13,592     * GNU Scientific Library    : no
2022-05-20T08:47:13,592     * GNU MPFR                  : no
2022-05-20T08:47:13,593     * JSON                      : yes

2022-05-20T08:47:13,593   Features
2022-05-20T08:47:13,594   --------
2022-05-20T08:47:13,594     * Use hash for NR Sampling  : no
2022-05-20T08:47:13,594     * C11 features              : yes
2022-05-20T08:47:13,595     * TTY colors                : yes
2022-05-20T08:47:13,595     * Float Precision(PF}       : no
2022-05-20T08:47:13,595     * Deprecation Warnings      : no

2022-05-20T08:47:13,596   Optimizations
2022-05-20T08:47:13,596   -------------
2022-05-20T08:47:13,597     * Auto Vectorization        : yes
2022-05-20T08:47:13,597     * Explicit SIMD Extension   : yes
2022-05-20T08:47:13,598     * Link Time Optimization    : yes
2022-05-20T08:47:13,598     * POSIX Threads             : yes
2022-05-20T08:47:13,598     * OpenMP                    : yes

2022-05-20T08:47:13,599   Scripting Language Interfaces
2022-05-20T08:47:13,599   -----------------------------
2022-05-20T08:47:13,600     * Perl 5                    : no
2022-05-20T08:47:13,600     * Python 3.x                : yes
2022-05-20T08:47:13,600     * Python 2.x                : yes

2022-05-20T08:47:13,601   Documentation
2022-05-20T08:47:13,602   -------------
2022-05-20T08:47:13,602     * Reference Manual (PDF)    : no
2022-05-20T08:47:13,603     * Reference Manual (HTML)   : no
2022-05-20T08:47:13,603     * Tutorial (PDF)            : no
2022-05-20T08:47:13,603     * Tutorial (HTML)           : no
2022-05-20T08:47:13,604     * CLA (PDF)                 : no

2022-05-20T08:47:13,604   Unit Tests
2022-05-20T08:47:13,605   ----------
2022-05-20T08:47:13,605     * Executable Programs       : yes
2022-05-20T08:47:13,605     * C-Library                 : no
2022-05-20T08:47:13,606     * Perl 5 Interface          : no
2022-05-20T08:47:13,606     * Python 3.x Interface      : yes
2022-05-20T08:47:13,606     * Python 2.x Interface      : yes

2022-05-20T08:47:13,607   MacOS X
2022-05-20T08:47:13,607   -------
2022-05-20T08:47:13,608     * Universal Binary          : no
2022-05-20T08:47:13,608     * Installer                 : no
2022-05-20T08:47:13,608     * SDK                       : custom

2022-05-20T08:47:13,609   Install Directories
2022-05-20T08:47:13,609   -------------------
2022-05-20T08:47:13,610     * Executables               : /tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/9631aece-8c66-4c27-bdb2-2456435f39c0/bin
2022-05-20T08:47:13,610     * Libraries                 : /tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/9631aece-8c66-4c27-bdb2-2456435f39c0/lib
2022-05-20T08:47:13,611     * Header files              : /tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/9631aece-8c66-4c27-bdb2-2456435f39c0/include
2022-05-20T08:47:13,611     * Extra Data                : /tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/9631aece-8c66-4c27-bdb2-2456435f39c0/share
2022-05-20T08:47:13,612     * Man pages                 : /tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/9631aece-8c66-4c27-bdb2-2456435f39c0/share/man
2022-05-20T08:47:13,612     * Documentation             : Not to be installed
2022-05-20T08:47:13,613         (HTML)                  :
2022-05-20T08:47:13,613         (PDF)                   :
2022-05-20T08:47:13,613     * Perl5 Interface           : Not to be installed
2022-05-20T08:47:13,614         (binaries)              :
2022-05-20T08:47:13,614         (scripts)               :
2022-05-20T08:47:13,615     * Python 3.x Interface      :
2022-05-20T08:47:13,615         (binaries)              : /usr/lib/python3.7/dist-packages
2022-05-20T08:47:13,615         (scripts)               : /usr/lib/python3.7/dist-packages
2022-05-20T08:47:13,616     * Python 2.x Interface      :
2022-05-20T08:47:13,616         (binaries)              : /tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/9631aece-8c66-4c27-bdb2-2456435f39c0/lib/python2.7/site-packages
2022-05-20T08:47:13,617         (scripts)               : /tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/9631aece-8c66-4c27-bdb2-2456435f39c0/lib/python2.7/site-packages

2022-05-20T08:47:13,617   You can run 'make', 'make check', and 'make install' now!
2022-05-20T08:47:14,255   make  all-recursive
2022-05-20T08:47:14,293   make[1]: Entering directory '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/ViennaRNA-2.5.0'
2022-05-20T08:47:14,338   Making all in src
2022-05-20T08:47:14,367   make[2]: Entering directory '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/ViennaRNA-2.5.0/src'
2022-05-20T08:47:14,413   Making all in ViennaRNA
2022-05-20T08:47:14,598   make[3]: Entering directory '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/ViennaRNA-2.5.0/src/ViennaRNA'
2022-05-20T08:47:14,642   Making all in static
2022-05-20T08:47:14,688   make[4]: Entering directory '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/ViennaRNA-2.5.0/src/ViennaRNA/static'
2022-05-20T08:47:14,689   make  all-am
2022-05-20T08:47:14,725   make[5]: Entering directory '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/ViennaRNA-2.5.0/src/ViennaRNA/static'
2022-05-20T08:47:14,725   make[5]: Nothing to be done for 'all-am'.
2022-05-20T08:47:14,726   make[5]: Leaving directory '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/ViennaRNA-2.5.0/src/ViennaRNA/static'
2022-05-20T08:47:14,727   make[4]: Leaving directory '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/ViennaRNA-2.5.0/src/ViennaRNA/static'
2022-05-20T08:47:14,856   make[4]: Entering directory '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/ViennaRNA-2.5.0/src/ViennaRNA'
2022-05-20T08:47:14,871     CC       fold_compound.lo
2022-05-20T08:47:19,530     CC       dist_vars.lo
2022-05-20T08:47:20,310     CC       part_func.lo
2022-05-20T08:47:26,955     CC       part_func_wrappers.lo
2022-05-20T08:47:28,843     CC       pf_fold.lo
2022-05-20T08:47:32,703     CC       pf_multifold.lo
2022-05-20T08:47:35,136     CC       treedist.lo
2022-05-20T08:47:40,263     CC       inverse.lo
2022-05-20T08:47:46,239     CC       ProfileDist.lo
2022-05-20T08:47:49,315     CC       RNAstruct.lo
2022-05-20T08:47:53,632     CC       mfe.lo
2022-05-20T08:48:21,639     CC       mfe_window.lo
2022-05-20T08:48:31,161     CC       mfe_wrappers.lo
2022-05-20T08:48:32,868     CC       mfe_window_wrappers.lo
2022-05-20T08:48:34,520     CC       fold.lo
2022-05-20T08:48:38,284     CC       stringdist.lo
2022-05-20T08:48:42,687     CC       subopt.lo
2022-05-20T08:49:23,482     CC       subopt_zuker.lo
2022-05-20T08:49:34,424     CC       Lfold.lo
2022-05-20T08:49:36,022     CC       cofold.lo
2022-05-20T08:49:38,284     CC       part_func_co.lo
2022-05-20T08:49:41,169     CC       ProfileAln.lo
2022-05-20T08:49:44,632     CC       duplex.lo
2022-05-20T08:49:58,676     CC       alifold.lo
2022-05-20T08:50:01,106     CC       alipfold.lo
2022-05-20T08:50:03,762     CC       LPfold.lo
2022-05-20T08:50:19,531     CC       part_func_up.lo
2022-05-20T08:50:39,835     CC       ribo.lo
2022-05-20T08:50:47,844     CC       MEA.lo
2022-05-20T08:50:51,790     CC       mm.lo
2022-05-20T08:50:56,418     CC       2Dfold.lo
2022-05-20T08:51:46,613     CC       2Dpfold.lo
2022-05-20T08:52:39,226     CC       plex_functions.lo
2022-05-20T08:52:47,658     CC       ali_plex.lo
2022-05-20T08:53:24,299     CC       c_plex.lo
2022-05-20T08:53:48,411     CC       plex.lo
2022-05-20T08:54:37,820     CC       snofold.lo
2022-05-20T08:54:53,296     CC       snoop.lo
2022-05-20T08:55:28,611     CC       gquad.lo
2022-05-20T08:55:37,624     CC       perturbation_fold.lo
2022-05-20T08:55:41,056     CC       centroid.lo
2022-05-20T08:55:43,628     CC       model.lo
2022-05-20T08:55:47,869     CC       dp_matrices.lo
2022-05-20T08:55:55,895     CC       boltzmann_sampling.lo
2022-05-20T08:56:25,162     CC       bs_wrappers.lo
2022-05-20T08:56:27,412     CC       equilibrium_probs.lo
2022-05-20T08:57:18,412     CXX      ../libsvm-3.25/svm.lo
2022-05-20T08:57:41,441     CC       ../json/json.lo
2022-05-20T08:57:47,762     CC       alphabet.lo
2022-05-20T08:57:51,216     CC       sequence.lo
2022-05-20T08:57:55,000     CC       unstructured_domains.lo
2022-05-20T08:58:07,171     CC       grammar.lo
2022-05-20T08:58:09,188     CC       heat_capacity.lo
2022-05-20T08:58:11,356     CC       zscore.lo
2022-05-20T08:58:13,335     CC       libRNA_concentrations_la-concentrations.lo
2022-05-20T08:58:15,502     CXX      ../dlib-19.22/dlib/all/libRNA_concentrations_la-source.lo
2022-05-20T08:59:47,767   In file included from ../dlib-19.22/dlib/all/../cuda/../matrix.h:11,
2022-05-20T08:59:47,769                    from ../dlib-19.22/dlib/all/../cuda/tensor.h:8,
2022-05-20T08:59:47,770                    from ../dlib-19.22/dlib/all/../cuda/cpu_dlib.h:9,
2022-05-20T08:59:47,771                    from ../dlib-19.22/dlib/all/../cuda/cpu_dlib.cpp:8,
2022-05-20T08:59:47,771                    from ../dlib-19.22/dlib/all/source.cpp:82:
2022-05-20T08:59:47,771   ../dlib-19.22/dlib/all/../filtering/kalman_filter.cpp: In function ‘dlib::svd4<dlib::matrix_op<dlib::op_trans<dlib::matrix_op<dlib::op_trans<dlib::matrix<double, 1l, 2l, dlib::memory_manager_stateless_kernel_1<char>, dlib::row_major_layout> > > > >, 1l, 1l, 1l, 1l, 2l, 1l, dlib::memory_manager_stateless_kernel_1<char>, dlib::memory_manager_stateless_kernel_1<char>, dlib::memory_manager_stateless_kernel_1<char>, dlib::row_major_layout>(dlib::svd_u_mode, bool, dlib::matrix_exp<dlib::matrix_op<dlib::op_trans<dlib::matrix_op<dlib::op_trans<dlib::matrix<double, 1l, 2l, dlib::memory_manager_stateless_kernel_1<char>, dlib::row_major_layout> > > > > > const&, dlib::matrix<dlib::matrix_op<dlib::op_trans<dlib::matrix_op<dlib::op_trans<dlib::matrix<double, 1l, 2l, dlib::memory_manager_stateless_kernel_1<char>, dlib::row_major_layout> > > > >::type, 1l, 1l, dlib::memory_manager_stateless_kernel_1<char>, dlib::row_major_layout>&, dlib::matrix<dlib::matrix_op<dlib::op_trans<dlib::matrix_op<dlib::op_trans<dlib::matrix<double, 1l, 2l, dlib::memory_manager_stateless_kernel_1<char>, dlib::row_major_layout> > > > >::type, 1l, 1l, dlib::memory_manager_stateless_kernel_1<char>, dlib::row_major_layout>&, dlib::matrix<dlib::matrix_op<dlib::op_trans<dlib::matrix_op<dlib::op_trans<dlib::matrix<double, 1l, 2l, dlib::memory_manager_stateless_kernel_1<char>, dlib::row_major_layout> > > > >::type, 2l, 1l, dlib::memory_manager_stateless_kernel_1<char>, dlib::row_major_layout>&)long’:
2022-05-20T08:59:47,772   ../dlib-19.22/dlib/all/../cuda/../matrix/matrix_la.h:225:32: warning: iteration 1 invokes undefined behavior [-Waggressive-loop-optimizations]
2022-05-20T08:59:47,772                y = abs(q(i)) + abs(e(i));
2022-05-20T08:59:47,773                                ~~~^~~~~~
2022-05-20T08:59:47,773   ../dlib-19.22/dlib/all/../cuda/../matrix/matrix_la.h:163:20: note: within this loop
2022-05-20T08:59:47,773            for (i=0; i<n; i++)
2022-05-20T08:59:47,774                      ~^~
2022-05-20T09:12:01,539     CXX      libRNA_concentrations_la-wrap_dlib.lo
2022-05-20T09:13:13,868     CXXLD    libRNA_concentrations.la
2022-05-20T09:13:22,371     CC       constraints/constraints.lo
2022-05-20T09:13:24,134     CC       constraints/SHAPE.lo
2022-05-20T09:13:28,232     CC       constraints/hard.lo
2022-05-20T09:13:40,795     CC       constraints/soft.lo
2022-05-20T09:13:48,881     CC       constraints/ligand.lo
2022-05-20T09:13:53,427     CCLD     libRNA_constraints.la
2022-05-20T09:13:54,573     CC       datastructures/basic_datastructures.lo
2022-05-20T09:13:55,666     CC       datastructures/lists.lo
2022-05-20T09:13:57,406     CC       datastructures/char_stream.lo
2022-05-20T09:14:00,592     CC       datastructures/stream_output.lo
2022-05-20T09:14:02,519     CC       datastructures/hash_tables.lo
2022-05-20T09:14:05,057     CC       datastructures/heap.lo
2022-05-20T09:14:07,550     CCLD     libRNA_datastructures.la
2022-05-20T09:14:08,610     CC       utils/utils.lo
2022-05-20T09:14:11,376     CC       utils/string_utils.lo
2022-05-20T09:14:14,245     CC       utils/structure_utils.lo
2022-05-20T09:14:28,678     CC       utils/structure_tree.lo
2022-05-20T09:14:31,453     CC       utils/msa_utils.lo
2022-05-20T09:14:39,785     CC       utils/higher_order_functions.lo
2022-05-20T09:14:41,375     CC       utils/cpu.lo
2022-05-20T09:14:42,634     CC       utils/units.lo
2022-05-20T09:14:44,221     CC       io/io_utils.lo
2022-05-20T09:14:46,300     CC       io/file_formats.lo
2022-05-20T09:14:49,826     CC       io/file_formats_msa.lo
2022-05-20T09:14:54,674     CC       search/BoyerMoore.lo
2022-05-20T09:14:56,871     CC       commands.lo
2022-05-20T09:15:01,140     CC       combinatorics.lo
2022-05-20T09:15:05,028     CC       utils/svm_utils.lo
2022-05-20T09:15:09,831     CCLD     libRNA_utils.la
2022-05-20T09:15:11,191     CC       plotting/alignments.lo
2022-05-20T09:15:15,886     CC       plotting/layouts.lo
2022-05-20T09:15:19,306     CC       plotting/probabilities.lo
2022-05-20T09:15:27,297     CC       plotting/structures.lo
2022-05-20T09:15:35,935     CC       plotting/plot_utils.lo
2022-05-20T09:15:38,366     CC       plotting/naview.lo
2022-05-20T09:15:46,070     CC       plotting/RNApuzzler/RNApuzzler.lo
2022-05-20T09:16:10,350     CC       plotting/RNApuzzler/RNAturtle.lo
2022-05-20T09:16:15,565     CCLD     libRNA_plotting.la
2022-05-20T09:16:16,929     CC       params/io.lo
2022-05-20T09:18:40,223     CC       params/default.lo
2022-05-20T09:18:45,343     CC       params/params.lo
2022-05-20T09:18:56,230     CC       params/convert.lo
2022-05-20T09:19:09,036     CCLD     libRNA_params.la
2022-05-20T09:19:12,591     CC       eval.lo
2022-05-20T09:19:29,865     CC       eval_wrappers.lo
2022-05-20T09:19:33,489     CCLD     libRNA_eval.la
2022-05-20T09:19:34,553     CC       loops/external.lo
2022-05-20T09:20:00,983     CC       loops/external_bt.lo
2022-05-20T09:20:14,579     CC       loops/external_pf.lo
2022-05-20T09:20:22,791     CC       loops/hairpin.lo
2022-05-20T09:20:30,614     CC       loops/hairpin_bt.lo
2022-05-20T09:20:32,580     CC       loops/hairpin_pf.lo
2022-05-20T09:20:40,826     CC       loops/internal.lo
2022-05-20T09:21:09,507     CC       loops/internal_bt.lo
2022-05-20T09:21:26,723     CC       loops/internal_pf.lo
2022-05-20T09:21:51,960     CC       loops/multibranch.lo
2022-05-20T09:22:15,785     CC       loops/multibranch_bt.lo
2022-05-20T09:22:36,807     CC       loops/multibranch_pf.lo
2022-05-20T09:22:47,225     CCLD     libRNA_loops.la
2022-05-20T09:22:48,817     CC       move_set.lo
2022-05-20T09:22:58,044     CC       landscape/move.lo
2022-05-20T09:22:59,837     CC       landscape/findpath.lo
2022-05-20T09:23:03,798     CC       landscape/neighbor.lo
2022-05-20T09:23:18,360     CC       landscape/walk.lo
2022-05-20T09:23:21,514     CCLD     libRNA_landscape.la
2022-05-20T09:23:22,538     CXXLD    libRNA_conv.la
2022-05-20T09:23:45,628     CXXLD    libRNA.la
2022-05-20T09:24:07,170     CC       special_const.lo
2022-05-20T09:24:08,483     CC       ugly_bt.lo
2022-05-20T09:24:20,419     CCLD     libRNA_special_const.la
2022-05-20T09:24:21,436     GEN      libRNA.a
2022-05-20T09:24:28,278   make[4]: Leaving directory '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/ViennaRNA-2.5.0/src/ViennaRNA'
2022-05-20T09:24:28,282   make[3]: Leaving directory '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/ViennaRNA-2.5.0/src/ViennaRNA'
2022-05-20T09:24:28,284   Making all in bin
2022-05-20T09:24:28,390   make[3]: Entering directory '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/ViennaRNA-2.5.0/src/bin'
2022-05-20T09:24:28,404     CC       RNAfold_cmdl.o
2022-05-20T09:24:33,153     CC       RNAfold.o
2022-05-20T09:24:36,394     CC       input_id_helpers.lo
2022-05-20T09:24:38,227     CC       parallel_helpers.lo
2022-05-20T09:24:39,520     CC       ../cthreadpool/thpool.lo
2022-05-20T09:24:41,797     CCLD     libhelpers.la
2022-05-20T09:24:42,758     CCLD     RNAfold
2022-05-20T09:27:40,171   ../../src/ViennaRNA/grammar.h:89:1: warning: type of 'vrna_gr_set_aux_exp_c' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T09:27:40,171    vrna_gr_set_aux_exp_c(vrna_fold_compound_t      *fc,
2022-05-20T09:27:40,172    ^
2022-05-20T09:27:40,172   grammar.c:74:1: note: 'vrna_gr_set_aux_exp_c' was previously declared here
2022-05-20T09:27:40,173   grammar.c:74:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T09:27:40,173   ../../src/ViennaRNA/pf_multifold.h:7:1: warning: type of 'vrna_pf_multifold_prepare' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T09:27:40,173    vrna_pf_multifold_prepare(vrna_fold_compound_t *fc);
2022-05-20T09:27:40,174    ^
2022-05-20T09:27:40,174   pf_multifold.c:30:1: note: 'vrna_pf_multifold_prepare' was previously declared here
2022-05-20T09:27:40,175   pf_multifold.c:30:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T09:27:40,176   ../../src/ViennaRNA/sequence.h:94:1: warning: type of 'vrna_msa_add' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T09:27:40,177    vrna_msa_add( vrna_fold_compound_t      *fc,
2022-05-20T09:27:40,177    ^
2022-05-20T09:27:40,177   sequence.c:128:1: note: 'vrna_msa_add' was previously declared here
2022-05-20T09:27:40,178   sequence.c:128:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T09:27:40,178   ../../src/ViennaRNA/sequence.h:81:1: warning: type of 'vrna_sequence_remove_all' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T09:27:40,178    vrna_sequence_remove_all(vrna_fold_compound_t *fc);
2022-05-20T09:27:40,179    ^
2022-05-20T09:27:40,179   sequence.c:313:1: note: 'vrna_sequence_remove_all' was previously declared here
2022-05-20T09:27:40,179   sequence.c:313:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T09:27:40,180   ../../src/ViennaRNA/sequence.h:70:1: warning: type of 'vrna_sequence_add' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T09:27:40,180    vrna_sequence_add(vrna_fold_compound_t  *fc,
2022-05-20T09:27:40,180    ^
2022-05-20T09:27:40,181   sequence.c:58:1: note: 'vrna_sequence_add' was previously declared here
2022-05-20T09:27:40,181   sequence.c:58:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T09:27:40,181   ../../src/ViennaRNA/sequence.h:85:1: warning: type of 'vrna_sequence_prepare' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T09:27:40,182    vrna_sequence_prepare(vrna_fold_compound_t *fc);
2022-05-20T09:27:40,182    ^
2022-05-20T09:27:40,182   sequence.c:363:1: note: 'vrna_sequence_prepare' was previously declared here
2022-05-20T09:27:40,183   sequence.c:363:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T09:27:40,199     CC       RNAeval_cmdl.o
2022-05-20T09:27:44,038     CC       RNAeval.o
2022-05-20T09:27:46,068     CCLD     RNAeval
2022-05-20T09:28:36,071   ../../src/ViennaRNA/sequence.h:94:1: warning: type of 'vrna_msa_add' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T09:28:36,071    vrna_msa_add( vrna_fold_compound_t      *fc,
2022-05-20T09:28:36,072    ^
2022-05-20T09:28:36,073   sequence.c:128:1: note: 'vrna_msa_add' was previously declared here
2022-05-20T09:28:36,073   sequence.c:128:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T09:28:36,074   ../../src/ViennaRNA/sequence.h:81:1: warning: type of 'vrna_sequence_remove_all' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T09:28:36,074    vrna_sequence_remove_all(vrna_fold_compound_t *fc);
2022-05-20T09:28:36,075    ^
2022-05-20T09:28:36,075   sequence.c:313:1: note: 'vrna_sequence_remove_all' was previously declared here
2022-05-20T09:28:36,076   sequence.c:313:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T09:28:36,076   ../../src/ViennaRNA/sequence.h:70:1: warning: type of 'vrna_sequence_add' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T09:28:36,076    vrna_sequence_add(vrna_fold_compound_t  *fc,
2022-05-20T09:28:36,077    ^
2022-05-20T09:28:36,077   sequence.c:58:1: note: 'vrna_sequence_add' was previously declared here
2022-05-20T09:28:36,077   sequence.c:58:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T09:28:36,078   ../../src/ViennaRNA/sequence.h:85:1: warning: type of 'vrna_sequence_prepare' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T09:28:36,078    vrna_sequence_prepare(vrna_fold_compound_t *fc);
2022-05-20T09:28:36,078    ^
2022-05-20T09:28:36,079   sequence.c:363:1: note: 'vrna_sequence_prepare' was previously declared here
2022-05-20T09:28:36,079   sequence.c:363:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T09:28:36,097     CC       RNAheat_cmdl.o
2022-05-20T09:28:39,694     CC       RNAheat.o
2022-05-20T09:28:41,198     CCLD     RNAheat
2022-05-20T09:30:29,084   ../../src/ViennaRNA/grammar.h:89:1: warning: type of 'vrna_gr_set_aux_exp_c' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T09:30:29,084    vrna_gr_set_aux_exp_c(vrna_fold_compound_t      *fc,
2022-05-20T09:30:29,085    ^
2022-05-20T09:30:29,085   grammar.c:74:1: note: 'vrna_gr_set_aux_exp_c' was previously declared here
2022-05-20T09:30:29,085   grammar.c:74:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T09:30:29,086   ../../src/ViennaRNA/pf_multifold.h:7:1: warning: type of 'vrna_pf_multifold_prepare' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T09:30:29,086    vrna_pf_multifold_prepare(vrna_fold_compound_t *fc);
2022-05-20T09:30:29,086    ^
2022-05-20T09:30:29,087   pf_multifold.c:30:1: note: 'vrna_pf_multifold_prepare' was previously declared here
2022-05-20T09:30:29,087   pf_multifold.c:30:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T09:30:29,087   ../../src/ViennaRNA/part_func.h:148:1: warning: type of 'vrna_pf' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T09:30:29,088    vrna_pf(vrna_fold_compound_t  *vc,
2022-05-20T09:30:29,088    ^
2022-05-20T09:30:29,088   part_func.c:82:1: note: 'vrna_pf' was previously declared here
2022-05-20T09:30:29,088   part_func.c:82:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T09:30:29,089   ../../src/ViennaRNA/mfe.h:98:1: warning: type of 'vrna_mfe' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T09:30:29,089    vrna_mfe(vrna_fold_compound_t *vc,
2022-05-20T09:30:29,089    ^
2022-05-20T09:30:29,090   mfe.c:194:1: note: 'vrna_mfe' was previously declared here
2022-05-20T09:30:29,090   mfe.c:194:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T09:30:29,090   ../../src/ViennaRNA/params/basic.h:343:1: warning: type of 'vrna_params_reset' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T09:30:29,091    vrna_params_reset(vrna_fold_compound_t  *vc,
2022-05-20T09:30:29,091    ^
2022-05-20T09:30:29,092   params/params.c:224:1: note: 'vrna_params_reset' was previously declared here
2022-05-20T09:30:29,092   params/params.c:224:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T09:30:29,092   ../../src/ViennaRNA/params/basic.h:325:1: warning: type of 'vrna_exp_params_rescale' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T09:30:29,093    vrna_exp_params_rescale(vrna_fold_compound_t  *vc,
2022-05-20T09:30:29,093    ^
2022-05-20T09:30:29,093   params/params.c:309:1: note: 'vrna_exp_params_rescale' was previously declared here
2022-05-20T09:30:29,094   params/params.c:309:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T09:30:29,094   ../../src/ViennaRNA/sequence.h:94:1: warning: type of 'vrna_msa_add' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T09:30:29,094    vrna_msa_add( vrna_fold_compound_t      *fc,
2022-05-20T09:30:29,095    ^
2022-05-20T09:30:29,095   sequence.c:128:1: note: 'vrna_msa_add' was previously declared here
2022-05-20T09:30:29,095   sequence.c:128:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T09:30:29,096   ../../src/ViennaRNA/sequence.h:81:1: warning: type of 'vrna_sequence_remove_all' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T09:30:29,096    vrna_sequence_remove_all(vrna_fold_compound_t *fc);
2022-05-20T09:30:29,096    ^
2022-05-20T09:30:29,097   sequence.c:313:1: note: 'vrna_sequence_remove_all' was previously declared here
2022-05-20T09:30:29,097   sequence.c:313:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T09:30:29,097   ../../src/ViennaRNA/sequence.h:70:1: warning: type of 'vrna_sequence_add' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T09:30:29,099    vrna_sequence_add(vrna_fold_compound_t  *fc,
2022-05-20T09:30:29,100    ^
2022-05-20T09:30:29,100   sequence.c:58:1: note: 'vrna_sequence_add' was previously declared here
2022-05-20T09:30:29,100   sequence.c:58:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T09:30:29,101   ../../src/ViennaRNA/sequence.h:85:1: warning: type of 'vrna_sequence_prepare' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T09:30:29,101    vrna_sequence_prepare(vrna_fold_compound_t *fc);
2022-05-20T09:30:29,101    ^
2022-05-20T09:30:29,102   sequence.c:363:1: note: 'vrna_sequence_prepare' was previously declared here
2022-05-20T09:30:29,102   sequence.c:363:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T09:30:29,102   ../../src/ViennaRNA/fold_compound.h:433:1: warning: type of 'vrna_fold_compound' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T09:30:29,103    vrna_fold_compound(const char       *sequence,
2022-05-20T09:30:29,103    ^
2022-05-20T09:30:29,103   fold_compound.c:191:1: note: 'vrna_fold_compound' was previously declared here
2022-05-20T09:30:29,104   fold_compound.c:191:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T09:30:29,104   ../../src/ViennaRNA/heat_capacity.h:129:1: warning: type of 'vrna_heat_capacity_cb' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T09:30:29,104    vrna_heat_capacity_cb(vrna_fold_compound_t        *fc,
2022-05-20T09:30:29,105    ^
2022-05-20T09:30:29,105   heat_capacity.c:96:1: note: 'vrna_heat_capacity_cb' was previously declared here
2022-05-20T09:30:29,105   heat_capacity.c:96:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T09:30:29,106   ../../src/ViennaRNA/fold_compound.h:512:1: warning: type of 'vrna_fold_compound_free' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T09:30:29,106    vrna_fold_compound_free(vrna_fold_compound_t *fc);
2022-05-20T09:30:29,106    ^
2022-05-20T09:30:29,107   fold_compound.c:109:1: note: 'vrna_fold_compound_free' was previously declared here
2022-05-20T09:30:29,107   fold_compound.c:109:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T09:30:29,122     CC       RNApdist_cmdl.o
2022-05-20T09:30:31,547     CC       RNApdist.o
2022-05-20T09:30:32,989     CCLD     RNApdist
2022-05-20T09:31:44,424   ../../src/ViennaRNA/grammar.h:89:1: warning: type of 'vrna_gr_set_aux_exp_c' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T09:31:44,424    vrna_gr_set_aux_exp_c(vrna_fold_compound_t      *fc,
2022-05-20T09:31:44,425    ^
2022-05-20T09:31:44,425   grammar.c:74:1: note: 'vrna_gr_set_aux_exp_c' was previously declared here
2022-05-20T09:31:44,425   grammar.c:74:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T09:31:44,426   ../../src/ViennaRNA/pf_multifold.h:7:1: warning: type of 'vrna_pf_multifold_prepare' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T09:31:44,426    vrna_pf_multifold_prepare(vrna_fold_compound_t *fc);
2022-05-20T09:31:44,426    ^
2022-05-20T09:31:44,427   pf_multifold.c:30:1: note: 'vrna_pf_multifold_prepare' was previously declared here
2022-05-20T09:31:44,427   pf_multifold.c:30:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T09:31:44,427   ../../src/ViennaRNA/sequence.h:94:1: warning: type of 'vrna_msa_add' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T09:31:44,427    vrna_msa_add( vrna_fold_compound_t      *fc,
2022-05-20T09:31:44,428    ^
2022-05-20T09:31:44,428   sequence.c:128:1: note: 'vrna_msa_add' was previously declared here
2022-05-20T09:31:44,428   sequence.c:128:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T09:31:44,429   ../../src/ViennaRNA/sequence.h:81:1: warning: type of 'vrna_sequence_remove_all' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T09:31:44,429    vrna_sequence_remove_all(vrna_fold_compound_t *fc);
2022-05-20T09:31:44,429    ^
2022-05-20T09:31:44,430   sequence.c:313:1: note: 'vrna_sequence_remove_all' was previously declared here
2022-05-20T09:31:44,430   sequence.c:313:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T09:31:44,430   ../../src/ViennaRNA/sequence.h:70:1: warning: type of 'vrna_sequence_add' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T09:31:44,431    vrna_sequence_add(vrna_fold_compound_t  *fc,
2022-05-20T09:31:44,431    ^
2022-05-20T09:31:44,431   sequence.c:58:1: note: 'vrna_sequence_add' was previously declared here
2022-05-20T09:31:44,432   sequence.c:58:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T09:31:44,432   ../../src/ViennaRNA/sequence.h:85:1: warning: type of 'vrna_sequence_prepare' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T09:31:44,432    vrna_sequence_prepare(vrna_fold_compound_t *fc);
2022-05-20T09:31:44,433    ^
2022-05-20T09:31:44,433   sequence.c:363:1: note: 'vrna_sequence_prepare' was previously declared here
2022-05-20T09:31:44,433   sequence.c:363:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T09:31:44,457     CC       RNAdistance_cmdl.o
2022-05-20T09:31:46,328     CC       RNAdistance.o
2022-05-20T09:31:48,690     CCLD     RNAdistance
2022-05-20T09:31:58,400     CC       RNAinverse_cmdl.o
2022-05-20T09:32:00,730     CC       RNAinverse.o
2022-05-20T09:32:02,022     CCLD     RNAinverse
2022-05-20T09:34:16,198   ../../src/ViennaRNA/grammar.h:89:1: warning: type of 'vrna_gr_set_aux_exp_c' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T09:34:16,199    vrna_gr_set_aux_exp_c(vrna_fold_compound_t      *fc,
2022-05-20T09:34:16,200    ^
2022-05-20T09:34:16,200   grammar.c:74:1: note: 'vrna_gr_set_aux_exp_c' was previously declared here
2022-05-20T09:34:16,200   grammar.c:74:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T09:34:16,201   ../../src/ViennaRNA/pf_multifold.h:7:1: warning: type of 'vrna_pf_multifold_prepare' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T09:34:16,201    vrna_pf_multifold_prepare(vrna_fold_compound_t *fc);
2022-05-20T09:34:16,201    ^
2022-05-20T09:34:16,202   pf_multifold.c:30:1: note: 'vrna_pf_multifold_prepare' was previously declared here
2022-05-20T09:34:16,202   pf_multifold.c:30:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T09:34:16,202   ../../src/ViennaRNA/sequence.h:94:1: warning: type of 'vrna_msa_add' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T09:34:16,203    vrna_msa_add( vrna_fold_compound_t      *fc,
2022-05-20T09:34:16,203    ^
2022-05-20T09:34:16,203   sequence.c:128:1: note: 'vrna_msa_add' was previously declared here
2022-05-20T09:34:16,204   sequence.c:128:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T09:34:16,204   ../../src/ViennaRNA/sequence.h:81:1: warning: type of 'vrna_sequence_remove_all' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T09:34:16,204    vrna_sequence_remove_all(vrna_fold_compound_t *fc);
2022-05-20T09:34:16,205    ^
2022-05-20T09:34:16,205   sequence.c:313:1: note: 'vrna_sequence_remove_all' was previously declared here
2022-05-20T09:34:16,205   sequence.c:313:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T09:34:16,206   ../../src/ViennaRNA/sequence.h:70:1: warning: type of 'vrna_sequence_add' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T09:34:16,206    vrna_sequence_add(vrna_fold_compound_t  *fc,
2022-05-20T09:34:16,206    ^
2022-05-20T09:34:16,207   sequence.c:58:1: note: 'vrna_sequence_add' was previously declared here
2022-05-20T09:34:16,207   sequence.c:58:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T09:34:16,207   ../../src/ViennaRNA/sequence.h:85:1: warning: type of 'vrna_sequence_prepare' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T09:34:16,207    vrna_sequence_prepare(vrna_fold_compound_t *fc);
2022-05-20T09:34:16,208    ^
2022-05-20T09:34:16,208   sequence.c:363:1: note: 'vrna_sequence_prepare' was previously declared here
2022-05-20T09:34:16,208   sequence.c:363:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T09:34:16,229     CC       RNAplot_cmdl.o
2022-05-20T09:34:19,696     CC       RNAplot.o
2022-05-20T09:34:21,535     CCLD     RNAplot
2022-05-20T09:34:46,971   ../../src/ViennaRNA/sequence.h:94:1: warning: type of 'vrna_msa_add' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T09:34:46,971    vrna_msa_add( vrna_fold_compound_t      *fc,
2022-05-20T09:34:46,971    ^
2022-05-20T09:34:46,972   sequence.c:128:1: note: 'vrna_msa_add' was previously declared here
2022-05-20T09:34:46,972   sequence.c:128:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T09:34:46,973   ../../src/ViennaRNA/sequence.h:81:1: warning: type of 'vrna_sequence_remove_all' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T09:34:46,973    vrna_sequence_remove_all(vrna_fold_compound_t *fc);
2022-05-20T09:34:46,973    ^
2022-05-20T09:34:46,974   sequence.c:313:1: note: 'vrna_sequence_remove_all' was previously declared here
2022-05-20T09:34:46,974   sequence.c:313:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T09:34:46,974   ../../src/ViennaRNA/sequence.h:70:1: warning: type of 'vrna_sequence_add' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T09:34:46,974    vrna_sequence_add(vrna_fold_compound_t  *fc,
2022-05-20T09:34:46,975    ^
2022-05-20T09:34:46,975   sequence.c:58:1: note: 'vrna_sequence_add' was previously declared here
2022-05-20T09:34:46,975   sequence.c:58:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T09:34:46,976   ../../src/ViennaRNA/sequence.h:85:1: warning: type of 'vrna_sequence_prepare' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T09:34:46,976    vrna_sequence_prepare(vrna_fold_compound_t *fc);
2022-05-20T09:34:46,977    ^
2022-05-20T09:34:46,977   sequence.c:363:1: note: 'vrna_sequence_prepare' was previously declared here
2022-05-20T09:34:46,977   sequence.c:363:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T09:34:46,998     CC       RNAsubopt_cmdl.o
2022-05-20T09:34:51,029     CC       RNAsubopt.o
2022-05-20T09:34:53,159     CCLD     RNAsubopt
2022-05-20T09:37:41,791   ../../src/ViennaRNA/loops/internal.h:66:1: warning: type of 'vrna_eval_int_loop' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T09:37:41,792    vrna_eval_int_loop(vrna_fold_compound_t *fc,
2022-05-20T09:37:41,792    ^
2022-05-20T09:37:41,792   loops/internal.c:123:1: note: 'vrna_eval_int_loop' was previously declared here
2022-05-20T09:37:41,793   loops/internal.c:123:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T09:37:41,793   ../../src/ViennaRNA/mfe.h:290:1: warning: type of 'vrna_backtrack_from_intervals' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T09:37:41,793    vrna_backtrack_from_intervals(vrna_fold_compound_t  *vc,
2022-05-20T09:37:41,793    ^
2022-05-20T09:37:41,794   mfe.c:281:1: note: 'vrna_backtrack_from_intervals' was previously declared here
2022-05-20T09:37:41,794   mfe.c:281:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T09:37:41,794   ../../src/ViennaRNA/grammar.h:89:1: warning: type of 'vrna_gr_set_aux_exp_c' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T09:37:41,795    vrna_gr_set_aux_exp_c(vrna_fold_compound_t      *fc,
2022-05-20T09:37:41,795    ^
2022-05-20T09:37:41,795   grammar.c:74:1: note: 'vrna_gr_set_aux_exp_c' was previously declared here
2022-05-20T09:37:41,796   grammar.c:74:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T09:37:41,796   ../../src/ViennaRNA/pf_multifold.h:7:1: warning: type of 'vrna_pf_multifold_prepare' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T09:37:41,796    vrna_pf_multifold_prepare(vrna_fold_compound_t *fc);
2022-05-20T09:37:41,797    ^
2022-05-20T09:37:41,797   pf_multifold.c:30:1: note: 'vrna_pf_multifold_prepare' was previously declared here
2022-05-20T09:37:41,797   pf_multifold.c:30:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T09:37:41,798   ../../src/ViennaRNA/sequence.h:94:1: warning: type of 'vrna_msa_add' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T09:37:41,798    vrna_msa_add( vrna_fold_compound_t      *fc,
2022-05-20T09:37:41,800    ^
2022-05-20T09:37:41,801   sequence.c:128:1: note: 'vrna_msa_add' was previously declared here
2022-05-20T09:37:41,801   sequence.c:128:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T09:37:41,802   ../../src/ViennaRNA/sequence.h:81:1: warning: type of 'vrna_sequence_remove_all' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T09:37:41,802    vrna_sequence_remove_all(vrna_fold_compound_t *fc);
2022-05-20T09:37:41,802    ^
2022-05-20T09:37:41,803   sequence.c:313:1: note: 'vrna_sequence_remove_all' was previously declared here
2022-05-20T09:37:41,803   sequence.c:313:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T09:37:41,804   ../../src/ViennaRNA/sequence.h:70:1: warning: type of 'vrna_sequence_add' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T09:37:41,804    vrna_sequence_add(vrna_fold_compound_t  *fc,
2022-05-20T09:37:41,804    ^
2022-05-20T09:37:41,804   sequence.c:58:1: note: 'vrna_sequence_add' was previously declared here
2022-05-20T09:37:41,805   sequence.c:58:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T09:37:41,805   ../../src/ViennaRNA/sequence.h:85:1: warning: type of 'vrna_sequence_prepare' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T09:37:41,805    vrna_sequence_prepare(vrna_fold_compound_t *fc);
2022-05-20T09:37:41,806    ^
2022-05-20T09:37:41,806   sequence.c:363:1: note: 'vrna_sequence_prepare' was previously declared here
2022-05-20T09:37:41,806   sequence.c:363:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T09:37:41,807   ../../src/ViennaRNA/mfe.h:98:1: warning: type of 'vrna_mfe' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T09:37:41,807    vrna_mfe(vrna_fold_compound_t *vc,
2022-05-20T09:37:41,807    ^
2022-05-20T09:37:41,808   mfe.c:194:1: note: 'vrna_mfe' was previously declared here
2022-05-20T09:37:41,808   mfe.c:194:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T09:37:41,808   ../../src/ViennaRNA/subopt_zuker.h:33:1: warning: type of 'vrna_subopt_zuker' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T09:37:41,809    vrna_subopt_zuker(vrna_fold_compound_t *fc);
2022-05-20T09:37:41,809    ^
2022-05-20T09:37:41,809   subopt_zuker.c:103:1: note: 'vrna_subopt_zuker' was previously declared here
2022-05-20T09:37:41,810   subopt_zuker.c:103:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T09:37:41,826     CC       RNALfold_cmdl.o
2022-05-20T09:37:45,107     CC       RNALfold.o
2022-05-20T09:37:46,787     CCLD     RNALfold
2022-05-20T09:39:21,191   ../../src/ViennaRNA/sequence.h:94:1: warning: type of 'vrna_msa_add' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T09:39:21,191    vrna_msa_add( vrna_fold_compound_t      *fc,
2022-05-20T09:39:21,192    ^
2022-05-20T09:39:21,192   sequence.c:128:1: note: 'vrna_msa_add' was previously declared here
2022-05-20T09:39:21,192   sequence.c:128:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T09:39:21,193   ../../src/ViennaRNA/sequence.h:81:1: warning: type of 'vrna_sequence_remove_all' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T09:39:21,193    vrna_sequence_remove_all(vrna_fold_compound_t *fc);
2022-05-20T09:39:21,193    ^
2022-05-20T09:39:21,194   sequence.c:313:1: note: 'vrna_sequence_remove_all' was previously declared here
2022-05-20T09:39:21,194   sequence.c:313:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T09:39:21,194   ../../src/ViennaRNA/sequence.h:70:1: warning: type of 'vrna_sequence_add' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T09:39:21,195    vrna_sequence_add(vrna_fold_compound_t  *fc,
2022-05-20T09:39:21,195    ^
2022-05-20T09:39:21,195   sequence.c:58:1: note: 'vrna_sequence_add' was previously declared here
2022-05-20T09:39:21,196   sequence.c:58:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T09:39:21,196   ../../src/ViennaRNA/sequence.h:85:1: warning: type of 'vrna_sequence_prepare' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T09:39:21,196    vrna_sequence_prepare(vrna_fold_compound_t *fc);
2022-05-20T09:39:21,197    ^
2022-05-20T09:39:21,197   sequence.c:363:1: note: 'vrna_sequence_prepare' was previously declared here
2022-05-20T09:39:21,197   sequence.c:363:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T09:39:21,221     CC       RNAcofold_cmdl.o
2022-05-20T09:39:25,395     CC       RNAcofold.o
2022-05-20T09:39:28,436     CCLD     RNAcofold
2022-05-20T09:42:16,251   ../../src/ViennaRNA/grammar.h:89:1: warning: type of 'vrna_gr_set_aux_exp_c' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T09:42:16,251    vrna_gr_set_aux_exp_c(vrna_fold_compound_t      *fc,
2022-05-20T09:42:16,252    ^
2022-05-20T09:42:16,252   grammar.c:74:1: note: 'vrna_gr_set_aux_exp_c' was previously declared here
2022-05-20T09:42:16,252   grammar.c:74:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T09:42:16,253   ../../src/ViennaRNA/pf_multifold.h:7:1: warning: type of 'vrna_pf_multifold_prepare' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T09:42:16,253    vrna_pf_multifold_prepare(vrna_fold_compound_t *fc);
2022-05-20T09:42:16,253    ^
2022-05-20T09:42:16,254   pf_multifold.c:30:1: note: 'vrna_pf_multifold_prepare' was previously declared here
2022-05-20T09:42:16,254   pf_multifold.c:30:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T09:42:16,254   ../../src/ViennaRNA/sequence.h:94:1: warning: type of 'vrna_msa_add' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T09:42:16,255    vrna_msa_add( vrna_fold_compound_t      *fc,
2022-05-20T09:42:16,255    ^
2022-05-20T09:42:16,256   sequence.c:128:1: note: 'vrna_msa_add' was previously declared here
2022-05-20T09:42:16,256   sequence.c:128:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T09:42:16,257   ../../src/ViennaRNA/sequence.h:81:1: warning: type of 'vrna_sequence_remove_all' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T09:42:16,257    vrna_sequence_remove_all(vrna_fold_compound_t *fc);
2022-05-20T09:42:16,257    ^
2022-05-20T09:42:16,258   sequence.c:313:1: note: 'vrna_sequence_remove_all' was previously declared here
2022-05-20T09:42:16,260   sequence.c:313:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T09:42:16,260   ../../src/ViennaRNA/sequence.h:70:1: warning: type of 'vrna_sequence_add' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T09:42:16,261    vrna_sequence_add(vrna_fold_compound_t  *fc,
2022-05-20T09:42:16,261    ^
2022-05-20T09:42:16,262   sequence.c:58:1: note: 'vrna_sequence_add' was previously declared here
2022-05-20T09:42:16,262   sequence.c:58:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T09:42:16,262   ../../src/ViennaRNA/sequence.h:85:1: warning: type of 'vrna_sequence_prepare' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T09:42:16,263    vrna_sequence_prepare(vrna_fold_compound_t *fc);
2022-05-20T09:42:16,263    ^
2022-05-20T09:42:16,263   sequence.c:363:1: note: 'vrna_sequence_prepare' was previously declared here
2022-05-20T09:42:16,264   sequence.c:363:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T09:42:16,283     CC       RNApaln_cmdl.o
2022-05-20T09:42:18,801     CC       RNApaln.o
2022-05-20T09:42:20,357     CCLD     RNApaln
2022-05-20T09:44:29,501   ../../src/ViennaRNA/grammar.h:89:1: warning: type of 'vrna_gr_set_aux_exp_c' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T09:44:29,501    vrna_gr_set_aux_exp_c(vrna_fold_compound_t      *fc,
2022-05-20T09:44:29,502    ^
2022-05-20T09:44:29,502   grammar.c:74:1: note: 'vrna_gr_set_aux_exp_c' was previously declared here
2022-05-20T09:44:29,502   grammar.c:74:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T09:44:29,503   ../../src/ViennaRNA/pf_multifold.h:7:1: warning: type of 'vrna_pf_multifold_prepare' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T09:44:29,503    vrna_pf_multifold_prepare(vrna_fold_compound_t *fc);
2022-05-20T09:44:29,503    ^
2022-05-20T09:44:29,504   pf_multifold.c:30:1: note: 'vrna_pf_multifold_prepare' was previously declared here
2022-05-20T09:44:29,504   pf_multifold.c:30:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T09:44:29,504   ../../src/ViennaRNA/sequence.h:94:1: warning: type of 'vrna_msa_add' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T09:44:29,505    vrna_msa_add( vrna_fold_compound_t      *fc,
2022-05-20T09:44:29,505    ^
2022-05-20T09:44:29,505   sequence.c:128:1: note: 'vrna_msa_add' was previously declared here
2022-05-20T09:44:29,506   sequence.c:128:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T09:44:29,506   ../../src/ViennaRNA/sequence.h:81:1: warning: type of 'vrna_sequence_remove_all' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T09:44:29,508    vrna_sequence_remove_all(vrna_fold_compound_t *fc);
2022-05-20T09:44:29,508    ^
2022-05-20T09:44:29,509   sequence.c:313:1: note: 'vrna_sequence_remove_all' was previously declared here
2022-05-20T09:44:29,509   sequence.c:313:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T09:44:29,510   ../../src/ViennaRNA/sequence.h:70:1: warning: type of 'vrna_sequence_add' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T09:44:29,510    vrna_sequence_add(vrna_fold_compound_t  *fc,
2022-05-20T09:44:29,510    ^
2022-05-20T09:44:29,511   sequence.c:58:1: note: 'vrna_sequence_add' was previously declared here
2022-05-20T09:44:29,511   sequence.c:58:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T09:44:29,511   ../../src/ViennaRNA/sequence.h:85:1: warning: type of 'vrna_sequence_prepare' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T09:44:29,512    vrna_sequence_prepare(vrna_fold_compound_t *fc);
2022-05-20T09:44:29,512    ^
2022-05-20T09:44:29,512   sequence.c:363:1: note: 'vrna_sequence_prepare' was previously declared here
2022-05-20T09:44:29,513   sequence.c:363:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T09:44:29,531     CC       RNAduplex_cmdl.o
2022-05-20T09:44:31,862     CC       RNAduplex.o
2022-05-20T09:44:32,804     CCLD     RNAduplex
2022-05-20T09:44:49,753   ../../src/ViennaRNA/sequence.h:94:1: warning: type of 'vrna_msa_add' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T09:44:49,754    vrna_msa_add( vrna_fold_compound_t      *fc,
2022-05-20T09:44:49,754    ^
2022-05-20T09:44:49,754   sequence.c:128:1: note: 'vrna_msa_add' was previously declared here
2022-05-20T09:44:49,755   sequence.c:128:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T09:44:49,755   ../../src/ViennaRNA/sequence.h:81:1: warning: type of 'vrna_sequence_remove_all' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T09:44:49,755    vrna_sequence_remove_all(vrna_fold_compound_t *fc);
2022-05-20T09:44:49,756    ^
2022-05-20T09:44:49,756   sequence.c:313:1: note: 'vrna_sequence_remove_all' was previously declared here
2022-05-20T09:44:49,756   sequence.c:313:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T09:44:49,757   ../../src/ViennaRNA/sequence.h:70:1: warning: type of 'vrna_sequence_add' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T09:44:49,757    vrna_sequence_add(vrna_fold_compound_t  *fc,
2022-05-20T09:44:49,757    ^
2022-05-20T09:44:49,758   sequence.c:58:1: note: 'vrna_sequence_add' was previously declared here
2022-05-20T09:44:49,758   sequence.c:58:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T09:44:49,758   ../../src/ViennaRNA/sequence.h:85:1: warning: type of 'vrna_sequence_prepare' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T09:44:49,759    vrna_sequence_prepare(vrna_fold_compound_t *fc);
2022-05-20T09:44:49,759    ^
2022-05-20T09:44:49,759   sequence.c:363:1: note: 'vrna_sequence_prepare' was previously declared here
2022-05-20T09:44:49,760   sequence.c:363:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T09:44:49,781     CC       RNAalifold_cmdl.o
2022-05-20T09:44:55,205     CC       RNAalifold.o
2022-05-20T09:44:58,336     CCLD     RNAalifold
2022-05-20T09:47:58,110   ../../src/ViennaRNA/grammar.h:89:1: warning: type of 'vrna_gr_set_aux_exp_c' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T09:47:58,111    vrna_gr_set_aux_exp_c(vrna_fold_compound_t      *fc,
2022-05-20T09:47:58,112    ^
2022-05-20T09:47:58,112   grammar.c:74:1: note: 'vrna_gr_set_aux_exp_c' was previously declared here
2022-05-20T09:47:58,113   grammar.c:74:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T09:47:58,113   ../../src/ViennaRNA/pf_multifold.h:7:1: warning: type of 'vrna_pf_multifold_prepare' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T09:47:58,114    vrna_pf_multifold_prepare(vrna_fold_compound_t *fc);
2022-05-20T09:47:58,114    ^
2022-05-20T09:47:58,114   pf_multifold.c:30:1: note: 'vrna_pf_multifold_prepare' was previously declared here
2022-05-20T09:47:58,115   pf_multifold.c:30:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T09:47:58,115   ../../src/ViennaRNA/sequence.h:94:1: warning: type of 'vrna_msa_add' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T09:47:58,116    vrna_msa_add( vrna_fold_compound_t      *fc,
2022-05-20T09:47:58,116    ^
2022-05-20T09:47:58,116   sequence.c:128:1: note: 'vrna_msa_add' was previously declared here
2022-05-20T09:47:58,117   sequence.c:128:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T09:47:58,117   ../../src/ViennaRNA/sequence.h:81:1: warning: type of 'vrna_sequence_remove_all' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T09:47:58,117    vrna_sequence_remove_all(vrna_fold_compound_t *fc);
2022-05-20T09:47:58,118    ^
2022-05-20T09:47:58,118   sequence.c:313:1: note: 'vrna_sequence_remove_all' was previously declared here
2022-05-20T09:47:58,118   sequence.c:313:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T09:47:58,119   ../../src/ViennaRNA/sequence.h:70:1: warning: type of 'vrna_sequence_add' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T09:47:58,119    vrna_sequence_add(vrna_fold_compound_t  *fc,
2022-05-20T09:47:58,119    ^
2022-05-20T09:47:58,121   sequence.c:58:1: note: 'vrna_sequence_add' was previously declared here
2022-05-20T09:47:58,121   sequence.c:58:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T09:47:58,121   ../../src/ViennaRNA/sequence.h:85:1: warning: type of 'vrna_sequence_prepare' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T09:47:58,122    vrna_sequence_prepare(vrna_fold_compound_t *fc);
2022-05-20T09:47:58,122    ^
2022-05-20T09:47:58,122   sequence.c:363:1: note: 'vrna_sequence_prepare' was previously declared here
2022-05-20T09:47:58,123   sequence.c:363:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T09:47:58,139     CC       RNAplfold_cmdl.o
2022-05-20T09:48:01,493     CC       RNAplfold.o
2022-05-20T09:48:03,935     CCLD     RNAplfold
2022-05-20T09:49:02,323   ../../src/ViennaRNA/grammar.h:89:1: warning: type of 'vrna_gr_set_aux_exp_c' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T09:49:02,324    vrna_gr_set_aux_exp_c(vrna_fold_compound_t      *fc,
2022-05-20T09:49:02,324    ^
2022-05-20T09:49:02,325   grammar.c:74:1: note: 'vrna_gr_set_aux_exp_c' was previously declared here
2022-05-20T09:49:02,325   grammar.c:74:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T09:49:02,325   ../../src/ViennaRNA/pf_multifold.h:7:1: warning: type of 'vrna_pf_multifold_prepare' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T09:49:02,326    vrna_pf_multifold_prepare(vrna_fold_compound_t *fc);
2022-05-20T09:49:02,326    ^
2022-05-20T09:49:02,326   pf_multifold.c:30:1: note: 'vrna_pf_multifold_prepare' was previously declared here
2022-05-20T09:49:02,327   pf_multifold.c:30:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T09:49:02,327   ../../src/ViennaRNA/sequence.h:94:1: warning: type of 'vrna_msa_add' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T09:49:02,327    vrna_msa_add( vrna_fold_compound_t      *fc,
2022-05-20T09:49:02,327    ^
2022-05-20T09:49:02,328   sequence.c:128:1: note: 'vrna_msa_add' was previously declared here
2022-05-20T09:49:02,328   sequence.c:128:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T09:49:02,329   ../../src/ViennaRNA/sequence.h:81:1: warning: type of 'vrna_sequence_remove_all' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T09:49:02,329    vrna_sequence_remove_all(vrna_fold_compound_t *fc);
2022-05-20T09:49:02,329    ^
2022-05-20T09:49:02,330   sequence.c:313:1: note: 'vrna_sequence_remove_all' was previously declared here
2022-05-20T09:49:02,331   sequence.c:313:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T09:49:02,331   ../../src/ViennaRNA/sequence.h:70:1: warning: type of 'vrna_sequence_add' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T09:49:02,331    vrna_sequence_add(vrna_fold_compound_t  *fc,
2022-05-20T09:49:02,332    ^
2022-05-20T09:49:02,333   sequence.c:58:1: note: 'vrna_sequence_add' was previously declared here
2022-05-20T09:49:02,334   sequence.c:58:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T09:49:02,335   ../../src/ViennaRNA/sequence.h:85:1: warning: type of 'vrna_sequence_prepare' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T09:49:02,335    vrna_sequence_prepare(vrna_fold_compound_t *fc);
2022-05-20T09:49:02,335    ^
2022-05-20T09:49:02,336   sequence.c:363:1: note: 'vrna_sequence_prepare' was previously declared here
2022-05-20T09:49:02,336   sequence.c:363:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T09:49:02,356     CC       RNAup_cmdl.o
2022-05-20T09:49:05,690     CC       RNAup.o
2022-05-20T09:49:09,231     CCLD     RNAup
2022-05-20T09:51:27,041   ../../src/ViennaRNA/grammar.h:89:1: warning: type of 'vrna_gr_set_aux_exp_c' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T09:51:27,041    vrna_gr_set_aux_exp_c(vrna_fold_compound_t      *fc,
2022-05-20T09:51:27,042    ^
2022-05-20T09:51:27,042   grammar.c:74:1: note: 'vrna_gr_set_aux_exp_c' was previously declared here
2022-05-20T09:51:27,042   grammar.c:74:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T09:51:27,043   ../../src/ViennaRNA/pf_multifold.h:7:1: warning: type of 'vrna_pf_multifold_prepare' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T09:51:27,043    vrna_pf_multifold_prepare(vrna_fold_compound_t *fc);
2022-05-20T09:51:27,043    ^
2022-05-20T09:51:27,044   pf_multifold.c:30:1: note: 'vrna_pf_multifold_prepare' was previously declared here
2022-05-20T09:51:27,044   pf_multifold.c:30:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T09:51:27,044   ../../src/ViennaRNA/sequence.h:94:1: warning: type of 'vrna_msa_add' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T09:51:27,045    vrna_msa_add( vrna_fold_compound_t      *fc,
2022-05-20T09:51:27,045    ^
2022-05-20T09:51:27,045   sequence.c:128:1: note: 'vrna_msa_add' was previously declared here
2022-05-20T09:51:27,047   sequence.c:128:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T09:51:27,048   ../../src/ViennaRNA/sequence.h:81:1: warning: type of 'vrna_sequence_remove_all' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T09:51:27,048    vrna_sequence_remove_all(vrna_fold_compound_t *fc);
2022-05-20T09:51:27,049    ^
2022-05-20T09:51:27,049   sequence.c:313:1: note: 'vrna_sequence_remove_all' was previously declared here
2022-05-20T09:51:27,049   sequence.c:313:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T09:51:27,050   ../../src/ViennaRNA/sequence.h:70:1: warning: type of 'vrna_sequence_add' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T09:51:27,050    vrna_sequence_add(vrna_fold_compound_t  *fc,
2022-05-20T09:51:27,050    ^
2022-05-20T09:51:27,051   sequence.c:58:1: note: 'vrna_sequence_add' was previously declared here
2022-05-20T09:51:27,051   sequence.c:58:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T09:51:27,051   ../../src/ViennaRNA/sequence.h:85:1: warning: type of 'vrna_sequence_prepare' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T09:51:27,052    vrna_sequence_prepare(vrna_fold_compound_t *fc);
2022-05-20T09:51:27,052    ^
2022-05-20T09:51:27,052   sequence.c:363:1: note: 'vrna_sequence_prepare' was previously declared here
2022-05-20T09:51:27,053   sequence.c:363:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T09:51:27,071     CC       RNAaliduplex_cmdl.o
2022-05-20T09:51:29,288     CC       RNAaliduplex.o
2022-05-20T09:51:30,121     CCLD     RNAaliduplex
2022-05-20T09:51:47,411   ../../src/ViennaRNA/sequence.h:94:1: warning: type of 'vrna_msa_add' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T09:51:47,411    vrna_msa_add( vrna_fold_compound_t      *fc,
2022-05-20T09:51:47,411    ^
2022-05-20T09:51:47,412   sequence.c:128:1: note: 'vrna_msa_add' was previously declared here
2022-05-20T09:51:47,412   sequence.c:128:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T09:51:47,412   ../../src/ViennaRNA/sequence.h:81:1: warning: type of 'vrna_sequence_remove_all' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T09:51:47,413    vrna_sequence_remove_all(vrna_fold_compound_t *fc);
2022-05-20T09:51:47,413    ^
2022-05-20T09:51:47,413   sequence.c:313:1: note: 'vrna_sequence_remove_all' was previously declared here
2022-05-20T09:51:47,414   sequence.c:313:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T09:51:47,414   ../../src/ViennaRNA/sequence.h:70:1: warning: type of 'vrna_sequence_add' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T09:51:47,414    vrna_sequence_add(vrna_fold_compound_t  *fc,
2022-05-20T09:51:47,415    ^
2022-05-20T09:51:47,415   sequence.c:58:1: note: 'vrna_sequence_add' was previously declared here
2022-05-20T09:51:47,415   sequence.c:58:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T09:51:47,416   ../../src/ViennaRNA/sequence.h:85:1: warning: type of 'vrna_sequence_prepare' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T09:51:47,416    vrna_sequence_prepare(vrna_fold_compound_t *fc);
2022-05-20T09:51:47,417    ^
2022-05-20T09:51:47,417   sequence.c:363:1: note: 'vrna_sequence_prepare' was previously declared here
2022-05-20T09:51:47,417   sequence.c:363:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T09:51:47,437     CC       RNALalifold_cmdl.o
2022-05-20T09:51:51,715     CC       RNALalifold.o
2022-05-20T09:51:53,756     CCLD     RNALalifold
2022-05-20T09:53:45,855   ../../src/ViennaRNA/sequence.h:94:1: warning: type of 'vrna_msa_add' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T09:53:45,856    vrna_msa_add( vrna_fold_compound_t      *fc,
2022-05-20T09:53:45,856    ^
2022-05-20T09:53:45,856   sequence.c:128:1: note: 'vrna_msa_add' was previously declared here
2022-05-20T09:53:45,857   sequence.c:128:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T09:53:45,857   ../../src/ViennaRNA/sequence.h:81:1: warning: type of 'vrna_sequence_remove_all' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T09:53:45,857    vrna_sequence_remove_all(vrna_fold_compound_t *fc);
2022-05-20T09:53:45,858    ^
2022-05-20T09:53:45,858   sequence.c:313:1: note: 'vrna_sequence_remove_all' was previously declared here
2022-05-20T09:53:45,858   sequence.c:313:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T09:53:45,859   ../../src/ViennaRNA/sequence.h:70:1: warning: type of 'vrna_sequence_add' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T09:53:45,859    vrna_sequence_add(vrna_fold_compound_t  *fc,
2022-05-20T09:53:45,859    ^
2022-05-20T09:53:45,860   sequence.c:58:1: note: 'vrna_sequence_add' was previously declared here
2022-05-20T09:53:45,860   sequence.c:58:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T09:53:45,860   ../../src/ViennaRNA/sequence.h:85:1: warning: type of 'vrna_sequence_prepare' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T09:53:45,861    vrna_sequence_prepare(vrna_fold_compound_t *fc);
2022-05-20T09:53:45,861    ^
2022-05-20T09:53:45,862   sequence.c:363:1: note: 'vrna_sequence_prepare' was previously declared here
2022-05-20T09:53:45,864   sequence.c:363:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T09:53:45,885     CC       RNA2Dfold_cmdl.o
2022-05-20T09:53:48,898     CC       RNA2Dfold.o
2022-05-20T09:53:50,826     CCLD     RNA2Dfold
2022-05-20T09:56:08,742   ../../src/ViennaRNA/sequence.h:94:1: warning: type of 'vrna_msa_add' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T09:56:08,743    vrna_msa_add( vrna_fold_compound_t      *fc,
2022-05-20T09:56:08,744    ^
2022-05-20T09:56:08,744   sequence.c:128:1: note: 'vrna_msa_add' was previously declared here
2022-05-20T09:56:08,744   sequence.c:128:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T09:56:08,745   ../../src/ViennaRNA/sequence.h:81:1: warning: type of 'vrna_sequence_remove_all' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T09:56:08,745    vrna_sequence_remove_all(vrna_fold_compound_t *fc);
2022-05-20T09:56:08,745    ^
2022-05-20T09:56:08,746   sequence.c:313:1: note: 'vrna_sequence_remove_all' was previously declared here
2022-05-20T09:56:08,746   sequence.c:313:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T09:56:08,746   ../../src/ViennaRNA/sequence.h:70:1: warning: type of 'vrna_sequence_add' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T09:56:08,747    vrna_sequence_add(vrna_fold_compound_t  *fc,
2022-05-20T09:56:08,747    ^
2022-05-20T09:56:08,747   sequence.c:58:1: note: 'vrna_sequence_add' was previously declared here
2022-05-20T09:56:08,748   sequence.c:58:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T09:56:08,748   ../../src/ViennaRNA/sequence.h:85:1: warning: type of 'vrna_sequence_prepare' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T09:56:08,748    vrna_sequence_prepare(vrna_fold_compound_t *fc);
2022-05-20T09:56:08,749    ^
2022-05-20T09:56:08,749   sequence.c:363:1: note: 'vrna_sequence_prepare' was previously declared here
2022-05-20T09:56:08,749   sequence.c:363:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T09:56:08,773     CC       RNAparconv_cmdl.o
2022-05-20T09:56:11,150     CC       RNAparconv.o
2022-05-20T09:56:11,878     CCLD     RNAparconv
2022-05-20T09:56:19,860     CC       RNAPKplex_cmdl.o
2022-05-20T09:56:22,010     CC       RNAPKplex.o
2022-05-20T09:56:23,219     CCLD     RNAPKplex
2022-05-20T09:58:33,366   ../../src/ViennaRNA/grammar.h:89:1: warning: type of 'vrna_gr_set_aux_exp_c' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T09:58:33,367    vrna_gr_set_aux_exp_c(vrna_fold_compound_t      *fc,
2022-05-20T09:58:33,368    ^
2022-05-20T09:58:33,368   grammar.c:74:1: note: 'vrna_gr_set_aux_exp_c' was previously declared here
2022-05-20T09:58:33,368   grammar.c:74:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T09:58:33,369   ../../src/ViennaRNA/pf_multifold.h:7:1: warning: type of 'vrna_pf_multifold_prepare' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T09:58:33,369    vrna_pf_multifold_prepare(vrna_fold_compound_t *fc);
2022-05-20T09:58:33,369    ^
2022-05-20T09:58:33,369   pf_multifold.c:30:1: note: 'vrna_pf_multifold_prepare' was previously declared here
2022-05-20T09:58:33,370   pf_multifold.c:30:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T09:58:33,370   ../../src/ViennaRNA/sequence.h:94:1: warning: type of 'vrna_msa_add' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T09:58:33,371    vrna_msa_add( vrna_fold_compound_t      *fc,
2022-05-20T09:58:33,371    ^
2022-05-20T09:58:33,372   sequence.c:128:1: note: 'vrna_msa_add' was previously declared here
2022-05-20T09:58:33,372   sequence.c:128:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T09:58:33,372   ../../src/ViennaRNA/sequence.h:81:1: warning: type of 'vrna_sequence_remove_all' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T09:58:33,373    vrna_sequence_remove_all(vrna_fold_compound_t *fc);
2022-05-20T09:58:33,373    ^
2022-05-20T09:58:33,373   sequence.c:313:1: note: 'vrna_sequence_remove_all' was previously declared here
2022-05-20T09:58:33,374   sequence.c:313:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T09:58:33,374   ../../src/ViennaRNA/sequence.h:70:1: warning: type of 'vrna_sequence_add' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T09:58:33,374    vrna_sequence_add(vrna_fold_compound_t  *fc,
2022-05-20T09:58:33,375    ^
2022-05-20T09:58:33,375   sequence.c:58:1: note: 'vrna_sequence_add' was previously declared here
2022-05-20T09:58:33,375   sequence.c:58:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T09:58:33,376   ../../src/ViennaRNA/sequence.h:85:1: warning: type of 'vrna_sequence_prepare' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T09:58:33,376    vrna_sequence_prepare(vrna_fold_compound_t *fc);
2022-05-20T09:58:33,376    ^
2022-05-20T09:58:33,378   sequence.c:363:1: note: 'vrna_sequence_prepare' was previously declared here
2022-05-20T09:58:33,381   sequence.c:363:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T09:58:33,399     CC       RNAplex_cmdl.o
2022-05-20T09:58:36,068     CC       RNAplex.o
2022-05-20T09:58:44,689     CCLD     RNAplex
2022-05-20T10:01:02,409   ../../src/ViennaRNA/sequence.h:94:1: warning: type of 'vrna_msa_add' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T10:01:02,410    vrna_msa_add( vrna_fold_compound_t      *fc,
2022-05-20T10:01:02,410    ^
2022-05-20T10:01:02,411   sequence.c:128:1: note: 'vrna_msa_add' was previously declared here
2022-05-20T10:01:02,411   sequence.c:128:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T10:01:02,411   ../../src/ViennaRNA/sequence.h:81:1: warning: type of 'vrna_sequence_remove_all' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T10:01:02,412    vrna_sequence_remove_all(vrna_fold_compound_t *fc);
2022-05-20T10:01:02,412    ^
2022-05-20T10:01:02,412   sequence.c:313:1: note: 'vrna_sequence_remove_all' was previously declared here
2022-05-20T10:01:02,413   sequence.c:313:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T10:01:02,413   ../../src/ViennaRNA/sequence.h:70:1: warning: type of 'vrna_sequence_add' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T10:01:02,413    vrna_sequence_add(vrna_fold_compound_t  *fc,
2022-05-20T10:01:02,414    ^
2022-05-20T10:01:02,414   sequence.c:58:1: note: 'vrna_sequence_add' was previously declared here
2022-05-20T10:01:02,414   sequence.c:58:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T10:01:02,415   ../../src/ViennaRNA/sequence.h:85:1: warning: type of 'vrna_sequence_prepare' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T10:01:02,415    vrna_sequence_prepare(vrna_fold_compound_t *fc);
2022-05-20T10:01:02,415    ^
2022-05-20T10:01:02,416   sequence.c:363:1: note: 'vrna_sequence_prepare' was previously declared here
2022-05-20T10:01:02,416   sequence.c:363:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T10:01:02,442     CC       RNAsnoop_cmdl.o
2022-05-20T10:01:05,389     CC       RNAsnoop.o
2022-05-20T10:01:09,169     CCLD     RNAsnoop
2022-05-20T10:01:51,148   ../../src/ViennaRNA/sequence.h:94:1: warning: type of 'vrna_msa_add' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T10:01:51,149    vrna_msa_add( vrna_fold_compound_t      *fc,
2022-05-20T10:01:51,149    ^
2022-05-20T10:01:51,149   sequence.c:128:1: note: 'vrna_msa_add' was previously declared here
2022-05-20T10:01:51,150   sequence.c:128:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T10:01:51,150   ../../src/ViennaRNA/sequence.h:81:1: warning: type of 'vrna_sequence_remove_all' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T10:01:51,150    vrna_sequence_remove_all(vrna_fold_compound_t *fc);
2022-05-20T10:01:51,151    ^
2022-05-20T10:01:51,151   sequence.c:313:1: note: 'vrna_sequence_remove_all' was previously declared here
2022-05-20T10:01:51,151   sequence.c:313:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T10:01:51,152   ../../src/ViennaRNA/sequence.h:70:1: warning: type of 'vrna_sequence_add' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T10:01:51,152    vrna_sequence_add(vrna_fold_compound_t  *fc,
2022-05-20T10:01:51,152    ^
2022-05-20T10:01:51,153   sequence.c:58:1: note: 'vrna_sequence_add' was previously declared here
2022-05-20T10:01:51,153   sequence.c:58:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T10:01:51,153   ../../src/ViennaRNA/sequence.h:85:1: warning: type of 'vrna_sequence_prepare' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T10:01:51,154    vrna_sequence_prepare(vrna_fold_compound_t *fc);
2022-05-20T10:01:51,154    ^
2022-05-20T10:01:51,154   sequence.c:363:1: note: 'vrna_sequence_prepare' was previously declared here
2022-05-20T10:01:51,155   sequence.c:363:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T10:01:51,182     CC       RNApvmin_cmdl.o
2022-05-20T10:01:54,330     CC       RNApvmin.o
2022-05-20T10:01:55,502     CCLD     RNApvmin
2022-05-20T10:03:55,100   ../../src/ViennaRNA/grammar.h:89:1: warning: type of 'vrna_gr_set_aux_exp_c' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T10:03:55,101    vrna_gr_set_aux_exp_c(vrna_fold_compound_t      *fc,
2022-05-20T10:03:55,101    ^
2022-05-20T10:03:55,101   grammar.c:74:1: note: 'vrna_gr_set_aux_exp_c' was previously declared here
2022-05-20T10:03:55,102   grammar.c:74:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T10:03:55,102   ../../src/ViennaRNA/pf_multifold.h:7:1: warning: type of 'vrna_pf_multifold_prepare' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T10:03:55,102    vrna_pf_multifold_prepare(vrna_fold_compound_t *fc);
2022-05-20T10:03:55,103    ^
2022-05-20T10:03:55,103   pf_multifold.c:30:1: note: 'vrna_pf_multifold_prepare' was previously declared here
2022-05-20T10:03:55,103   pf_multifold.c:30:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T10:03:55,103   ../../src/ViennaRNA/sequence.h:94:1: warning: type of 'vrna_msa_add' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T10:03:55,104    vrna_msa_add( vrna_fold_compound_t      *fc,
2022-05-20T10:03:55,104    ^
2022-05-20T10:03:55,104   sequence.c:128:1: note: 'vrna_msa_add' was previously declared here
2022-05-20T10:03:55,105   sequence.c:128:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T10:03:55,105   ../../src/ViennaRNA/sequence.h:81:1: warning: type of 'vrna_sequence_remove_all' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T10:03:55,106    vrna_sequence_remove_all(vrna_fold_compound_t *fc);
2022-05-20T10:03:55,106    ^
2022-05-20T10:03:55,107   sequence.c:313:1: note: 'vrna_sequence_remove_all' was previously declared here
2022-05-20T10:03:55,107   sequence.c:313:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T10:03:55,108   ../../src/ViennaRNA/sequence.h:70:1: warning: type of 'vrna_sequence_add' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T10:03:55,108    vrna_sequence_add(vrna_fold_compound_t  *fc,
2022-05-20T10:03:55,108    ^
2022-05-20T10:03:55,109   sequence.c:58:1: note: 'vrna_sequence_add' was previously declared here
2022-05-20T10:03:55,109   sequence.c:58:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T10:03:55,109   ../../src/ViennaRNA/sequence.h:85:1: warning: type of 'vrna_sequence_prepare' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T10:03:55,111    vrna_sequence_prepare(vrna_fold_compound_t *fc);
2022-05-20T10:03:55,111    ^
2022-05-20T10:03:55,112   sequence.c:363:1: note: 'vrna_sequence_prepare' was previously declared here
2022-05-20T10:03:55,112   sequence.c:363:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T10:03:55,132     CC       RNAdos_cmdl.o
2022-05-20T10:03:57,253     CC       RNAdos.o
2022-05-20T10:04:00,844     CCLD     RNAdos
2022-05-20T10:05:09,665   ../../src/ViennaRNA/sequence.h:94:1: warning: type of 'vrna_msa_add' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T10:05:09,666    vrna_msa_add( vrna_fold_compound_t      *fc,
2022-05-20T10:05:09,666    ^
2022-05-20T10:05:09,666   sequence.c:128:1: note: 'vrna_msa_add' was previously declared here
2022-05-20T10:05:09,667   sequence.c:128:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T10:05:09,667   ../../src/ViennaRNA/sequence.h:81:1: warning: type of 'vrna_sequence_remove_all' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T10:05:09,667    vrna_sequence_remove_all(vrna_fold_compound_t *fc);
2022-05-20T10:05:09,667    ^
2022-05-20T10:05:09,668   sequence.c:313:1: note: 'vrna_sequence_remove_all' was previously declared here
2022-05-20T10:05:09,668   sequence.c:313:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T10:05:09,668   ../../src/ViennaRNA/sequence.h:70:1: warning: type of 'vrna_sequence_add' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T10:05:09,669    vrna_sequence_add(vrna_fold_compound_t  *fc,
2022-05-20T10:05:09,669    ^
2022-05-20T10:05:09,669   sequence.c:58:1: note: 'vrna_sequence_add' was previously declared here
2022-05-20T10:05:09,670   sequence.c:58:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T10:05:09,670   ../../src/ViennaRNA/sequence.h:85:1: warning: type of 'vrna_sequence_prepare' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T10:05:09,670    vrna_sequence_prepare(vrna_fold_compound_t *fc);
2022-05-20T10:05:09,671    ^
2022-05-20T10:05:09,671   sequence.c:363:1: note: 'vrna_sequence_prepare' was previously declared here
2022-05-20T10:05:09,671   sequence.c:363:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T10:05:09,672   ../../src/ViennaRNA/fold_compound.h:433:1: warning: type of 'vrna_fold_compound' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T10:05:09,672    vrna_fold_compound(const char       *sequence,
2022-05-20T10:05:09,672    ^
2022-05-20T10:05:09,673   fold_compound.c:191:1: note: 'vrna_fold_compound' was previously declared here
2022-05-20T10:05:09,673   fold_compound.c:191:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T10:05:09,674   ../../src/ViennaRNA/fold_compound.h:500:1: warning: type of 'vrna_fold_compound_prepare' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T10:05:09,674    vrna_fold_compound_prepare(vrna_fold_compound_t *fc,
2022-05-20T10:05:09,675    ^
2022-05-20T10:05:09,675   fold_compound.c:510:1: note: 'vrna_fold_compound_prepare' was previously declared here
2022-05-20T10:05:09,676   fold_compound.c:510:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T10:05:09,676   ../../src/ViennaRNA/fold_compound.h:512:1: warning: type of 'vrna_fold_compound_free' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T10:05:09,677    vrna_fold_compound_free(vrna_fold_compound_t *fc);
2022-05-20T10:05:09,677    ^
2022-05-20T10:05:09,677   fold_compound.c:109:1: note: 'vrna_fold_compound_free' was previously declared here
2022-05-20T10:05:09,678   fold_compound.c:109:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T10:05:09,678   ../../src/ViennaRNA/mfe.h:98:1: warning: type of 'vrna_mfe' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T10:05:09,678    vrna_mfe(vrna_fold_compound_t *vc,
2022-05-20T10:05:09,679    ^
2022-05-20T10:05:09,679   mfe.c:194:1: note: 'vrna_mfe' was previously declared here
2022-05-20T10:05:09,680   mfe.c:194:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T10:05:09,680   ../../src/ViennaRNA/dp_matrices.h:421:1: warning: type of 'vrna_mx_mfe_free' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T10:05:09,680    vrna_mx_mfe_free(vrna_fold_compound_t *vc);
2022-05-20T10:05:09,681    ^
2022-05-20T10:05:09,681   dp_matrices.c:181:1: note: 'vrna_mx_mfe_free' was previously declared here
2022-05-20T10:05:09,682   dp_matrices.c:181:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T10:05:09,701     CC       RNAmultifold_cmdl.o
2022-05-20T10:05:13,111     CC       RNAmultifold.o
2022-05-20T10:05:16,857     CCLD     RNAmultifold
2022-05-20T10:08:18,351   ../../src/ViennaRNA/grammar.h:89:1: warning: type of 'vrna_gr_set_aux_exp_c' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T10:08:18,352    vrna_gr_set_aux_exp_c(vrna_fold_compound_t      *fc,
2022-05-20T10:08:18,353    ^
2022-05-20T10:08:18,353   grammar.c:74:1: note: 'vrna_gr_set_aux_exp_c' was previously declared here
2022-05-20T10:08:18,353   grammar.c:74:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T10:08:18,354   ../../src/ViennaRNA/pf_multifold.h:7:1: warning: type of 'vrna_pf_multifold_prepare' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T10:08:18,354    vrna_pf_multifold_prepare(vrna_fold_compound_t *fc);
2022-05-20T10:08:18,354    ^
2022-05-20T10:08:18,354   pf_multifold.c:30:1: note: 'vrna_pf_multifold_prepare' was previously declared here
2022-05-20T10:08:18,355   pf_multifold.c:30:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T10:08:18,355   ../../src/ViennaRNA/sequence.h:94:1: warning: type of 'vrna_msa_add' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T10:08:18,355    vrna_msa_add( vrna_fold_compound_t      *fc,
2022-05-20T10:08:18,356    ^
2022-05-20T10:08:18,356   sequence.c:128:1: note: 'vrna_msa_add' was previously declared here
2022-05-20T10:08:18,357   sequence.c:128:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T10:08:18,357   ../../src/ViennaRNA/sequence.h:81:1: warning: type of 'vrna_sequence_remove_all' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T10:08:18,358    vrna_sequence_remove_all(vrna_fold_compound_t *fc);
2022-05-20T10:08:18,359    ^
2022-05-20T10:08:18,359   sequence.c:313:1: note: 'vrna_sequence_remove_all' was previously declared here
2022-05-20T10:08:18,359   sequence.c:313:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T10:08:18,360   ../../src/ViennaRNA/sequence.h:70:1: warning: type of 'vrna_sequence_add' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T10:08:18,360    vrna_sequence_add(vrna_fold_compound_t  *fc,
2022-05-20T10:08:18,361    ^
2022-05-20T10:08:18,361   sequence.c:58:1: note: 'vrna_sequence_add' was previously declared here
2022-05-20T10:08:18,361   sequence.c:58:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T10:08:18,361   ../../src/ViennaRNA/sequence.h:85:1: warning: type of 'vrna_sequence_prepare' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T10:08:18,362    vrna_sequence_prepare(vrna_fold_compound_t *fc);
2022-05-20T10:08:18,362    ^
2022-05-20T10:08:18,362   sequence.c:363:1: note: 'vrna_sequence_prepare' was previously declared here
2022-05-20T10:08:18,363   sequence.c:363:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T10:08:18,371   make[3]: Leaving directory '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/ViennaRNA-2.5.0/src/bin'
2022-05-20T10:08:18,374   Making all in Utils
2022-05-20T10:08:18,425   make[3]: Entering directory '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/ViennaRNA-2.5.0/src/Utils'
2022-05-20T10:08:18,439     CC       b2ct.o
2022-05-20T10:08:19,128     CCLD     b2ct
2022-05-20T10:08:21,404     CC       popt.o
2022-05-20T10:08:22,001     CCLD     popt
2022-05-20T10:08:24,677     CC       ct2db_cmdl.o
2022-05-20T10:08:26,442     CC       ct2db.o
2022-05-20T10:08:27,546     CCLD     ct2db
2022-05-20T10:08:35,296   make[3]: Leaving directory '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/ViennaRNA-2.5.0/src/Utils'
2022-05-20T10:08:35,324   make[3]: Entering directory '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/ViennaRNA-2.5.0/src'
2022-05-20T10:08:35,325   make[3]: Nothing to be done for 'all-am'.
2022-05-20T10:08:35,325   make[3]: Leaving directory '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/ViennaRNA-2.5.0/src'
2022-05-20T10:08:35,328   make[2]: Leaving directory '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/ViennaRNA-2.5.0/src'
2022-05-20T10:08:35,331   Making all in man
2022-05-20T10:08:35,365   make[2]: Entering directory '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/ViennaRNA-2.5.0/man'
2022-05-20T10:08:35,365   make[2]: Nothing to be done for 'all'.
2022-05-20T10:08:35,366   make[2]: Leaving directory '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/ViennaRNA-2.5.0/man'
2022-05-20T10:08:35,367   Making all in misc
2022-05-20T10:08:35,400   make[2]: Entering directory '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/ViennaRNA-2.5.0/misc'
2022-05-20T10:08:35,400   make[2]: Nothing to be done for 'all'.
2022-05-20T10:08:35,401   make[2]: Leaving directory '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/ViennaRNA-2.5.0/misc'
2022-05-20T10:08:35,403   Making all in doc
2022-05-20T10:08:35,434   make[2]: Entering directory '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/ViennaRNA-2.5.0/doc'
2022-05-20T10:08:35,480   Making all in CLA
2022-05-20T10:08:35,509   make[3]: Entering directory '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/ViennaRNA-2.5.0/doc/CLA'
2022-05-20T10:08:35,509   make[3]: Nothing to be done for 'all'.
2022-05-20T10:08:35,510   make[3]: Leaving directory '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/ViennaRNA-2.5.0/doc/CLA'
2022-05-20T10:08:35,538   make[3]: Entering directory '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/ViennaRNA-2.5.0/doc'
2022-05-20T10:08:35,539   make[3]: Nothing to be done for 'all-am'.
2022-05-20T10:08:35,539   make[3]: Leaving directory '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/ViennaRNA-2.5.0/doc'
2022-05-20T10:08:35,541   make[2]: Leaving directory '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/ViennaRNA-2.5.0/doc'
2022-05-20T10:08:35,544   Making all in RNA-Tutorial
2022-05-20T10:08:35,574   make[2]: Entering directory '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/ViennaRNA-2.5.0/RNA-Tutorial'
2022-05-20T10:08:35,574   make[2]: Nothing to be done for 'all'.
2022-05-20T10:08:35,575   make[2]: Leaving directory '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/ViennaRNA-2.5.0/RNA-Tutorial'
2022-05-20T10:08:35,577   Making all in interfaces
2022-05-20T10:08:35,609   make[2]: Entering directory '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/ViennaRNA-2.5.0/interfaces'
2022-05-20T10:08:35,654   Making all in Python
2022-05-20T10:08:35,690   make[3]: Entering directory '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/ViennaRNA-2.5.0/interfaces/Python'
2022-05-20T10:08:35,704     CXX      _RNA_la-RNA_wrap.lo
2022-05-20T10:22:26,845     CXXLD    _RNA.la
2022-05-20T10:38:31,808   ../../src/ViennaRNA/eval.h:979:1: warning: type of 'vrna_eval_move_shift_pt' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T10:38:31,809    vrna_eval_move_shift_pt(vrna_fold_compound_t  *vc,
2022-05-20T10:38:31,809    ^
2022-05-20T10:38:31,810   eval_wrappers.c:399:1: note: 'vrna_eval_move_shift_pt' was previously declared here
2022-05-20T10:38:31,810   eval_wrappers.c:399:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T10:38:31,810   ../../src/ViennaRNA/mfe.h:290:1: warning: type of 'vrna_backtrack_from_intervals' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T10:38:31,811    vrna_backtrack_from_intervals(vrna_fold_compound_t  *vc,
2022-05-20T10:38:31,811    ^
2022-05-20T10:38:31,811   mfe.c:281:1: note: 'vrna_backtrack_from_intervals' was previously declared here
2022-05-20T10:38:31,812   mfe.c:281:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T10:38:31,812   ../../src/ViennaRNA/grammar.h:89:1: warning: type of 'vrna_gr_set_aux_exp_c' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T10:38:31,812    vrna_gr_set_aux_exp_c(vrna_fold_compound_t      *fc,
2022-05-20T10:38:31,813    ^
2022-05-20T10:38:31,813   grammar.c:74:1: note: 'vrna_gr_set_aux_exp_c' was previously declared here
2022-05-20T10:38:31,813   grammar.c:74:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T10:38:31,813   ../../src/ViennaRNA/pf_multifold.h:7:1: warning: type of 'vrna_pf_multifold_prepare' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T10:38:31,814    vrna_pf_multifold_prepare(vrna_fold_compound_t *fc);
2022-05-20T10:38:31,814    ^
2022-05-20T10:38:31,814   pf_multifold.c:30:1: note: 'vrna_pf_multifold_prepare' was previously declared here
2022-05-20T10:38:31,815   pf_multifold.c:30:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T10:38:31,815   ../../src/ViennaRNA/sequence.h:94:1: warning: type of 'vrna_msa_add' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T10:38:31,815    vrna_msa_add( vrna_fold_compound_t      *fc,
2022-05-20T10:38:31,815    ^
2022-05-20T10:38:31,816   sequence.c:128:1: note: 'vrna_msa_add' was previously declared here
2022-05-20T10:38:31,816   sequence.c:128:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T10:38:31,816   ../../src/ViennaRNA/eval.h:209:1: warning: type of 'vrna_eval_structure_pt' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T10:38:31,817    vrna_eval_structure_pt(vrna_fold_compound_t *vc,
2022-05-20T10:38:31,817    ^
2022-05-20T10:38:31,817   eval_wrappers.c:285:1: note: 'vrna_eval_structure_pt' was previously declared here
2022-05-20T10:38:31,817   eval_wrappers.c:285:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T10:38:31,818   ../../src/ViennaRNA/eval.h:965:1: warning: type of 'vrna_eval_move_pt' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T10:38:31,818    vrna_eval_move_pt(vrna_fold_compound_t  *vc,
2022-05-20T10:38:31,818    ^
2022-05-20T10:38:31,819   eval.c:397:1: note: 'vrna_eval_move_pt' was previously declared here
2022-05-20T10:38:31,819   eval.c:397:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T10:38:31,819   ../../src/ViennaRNA/landscape/neighbor.h:188:1: warning: type of 'vrna_neighbors' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T10:38:31,819    vrna_neighbors(vrna_fold_compound_t *vc,
2022-05-20T10:38:31,820    ^
2022-05-20T10:38:31,820   landscape/neighbor.c:2106:1: note: 'vrna_neighbors' was previously declared here
2022-05-20T10:38:31,820   landscape/neighbor.c:2106:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T10:38:31,821   ../../src/ViennaRNA/landscape/walk.h:74:1: warning: type of 'vrna_path' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T10:38:31,821    vrna_path(vrna_fold_compound_t  *vc,
2022-05-20T10:38:31,821    ^
2022-05-20T10:38:31,821   landscape/walk.c:113:1: note: 'vrna_path' was previously declared here
2022-05-20T10:38:31,822   landscape/walk.c:113:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T10:38:31,822   ../../src/ViennaRNA/landscape/walk.h:102:1: warning: type of 'vrna_path_gradient' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T10:38:31,822    vrna_path_gradient(vrna_fold_compound_t *vc,
2022-05-20T10:38:31,823    ^
2022-05-20T10:38:31,823   landscape/walk.c:97:1: note: 'vrna_path_gradient' was previously declared here
2022-05-20T10:38:31,823   landscape/walk.c:97:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T10:38:31,824   ../../src/ViennaRNA/landscape/walk.h:130:1: warning: type of 'vrna_path_random' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T10:38:31,824    vrna_path_random(vrna_fold_compound_t *vc,
2022-05-20T10:38:31,824    ^
2022-05-20T10:38:31,824   landscape/walk.c:84:1: note: 'vrna_path_random' was previously declared here
2022-05-20T10:38:31,825   landscape/walk.c:84:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T10:38:31,825   ../../src/ViennaRNA/sequence.h:70:1: warning: type of 'vrna_sequence_add' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T10:38:31,825    vrna_sequence_add(vrna_fold_compound_t  *fc,
2022-05-20T10:38:31,825    ^
2022-05-20T10:38:31,826   ../../src/ViennaRNA/sequence.h:70:1: warning: type of 'vrna_sequence_add' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T10:38:31,826    vrna_sequence_add(vrna_fold_compound_t  *fc,
2022-05-20T10:38:31,826    ^
2022-05-20T10:38:31,827   sequence.c:58:1: note: 'vrna_sequence_add' was previously declared here
2022-05-20T10:38:31,827   sequence.c:58:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T10:38:31,827   ../../src/ViennaRNA/heat_capacity.h:92:1: warning: type of 'vrna_heat_capacity' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T10:38:31,827    vrna_heat_capacity(vrna_fold_compound_t *fc,
2022-05-20T10:38:31,828    ^
2022-05-20T10:38:31,828   heat_capacity.c:59:1: note: 'vrna_heat_capacity' was previously declared here
2022-05-20T10:38:31,828   heat_capacity.c:59:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T10:38:31,829   ../../src/ViennaRNA/subopt_zuker.h:33:1: warning: type of 'vrna_subopt_zuker' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T10:38:31,829    vrna_subopt_zuker(vrna_fold_compound_t *fc);
2022-05-20T10:38:31,829    ^
2022-05-20T10:38:31,829   ../../src/ViennaRNA/subopt_zuker.h:33:1: warning: type of 'vrna_subopt_zuker' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T10:38:31,830    vrna_subopt_zuker(vrna_fold_compound_t *fc);
2022-05-20T10:38:31,830    ^
2022-05-20T10:38:31,830   subopt_zuker.c:103:1: note: 'vrna_subopt_zuker' was previously declared here
2022-05-20T10:38:31,831   subopt_zuker.c:103:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T10:38:31,831   ../../src/ViennaRNA/fold_compound.h:433:1: warning: type of 'vrna_fold_compound' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T10:38:31,831    vrna_fold_compound(const char       *sequence,
2022-05-20T10:38:31,831    ^
2022-05-20T10:38:31,832   fold_compound.c:191:1: note: 'vrna_fold_compound' was previously declared here
2022-05-20T10:38:31,832   fold_compound.c:191:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T10:38:31,832   ../../src/ViennaRNA/params/basic.h:325:1: warning: type of 'vrna_exp_params_rescale' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T10:38:31,833    vrna_exp_params_rescale(vrna_fold_compound_t  *vc,
2022-05-20T10:38:31,833    ^
2022-05-20T10:38:31,833   params/params.c:309:1: note: 'vrna_exp_params_rescale' was previously declared here
2022-05-20T10:38:31,834   params/params.c:309:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T10:38:31,834   ../../src/ViennaRNA/params/basic.h:343:1: warning: type of 'vrna_params_reset' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T10:38:31,834    vrna_params_reset(vrna_fold_compound_t  *vc,
2022-05-20T10:38:31,835    ^
2022-05-20T10:38:31,835   params/params.c:224:1: note: 'vrna_params_reset' was previously declared here
2022-05-20T10:38:31,835   params/params.c:224:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T10:38:31,836   ../../src/ViennaRNA/loops/internal.h:66:1: warning: type of 'vrna_eval_int_loop' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T10:38:31,836    vrna_eval_int_loop(vrna_fold_compound_t *fc,
2022-05-20T10:38:31,837    ^
2022-05-20T10:38:31,837   loops/internal.c:123:1: note: 'vrna_eval_int_loop' was previously declared here
2022-05-20T10:38:31,837   loops/internal.c:123:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T10:38:31,837   ../../src/ViennaRNA/sequence.h:76:1: warning: type of 'vrna_sequence_remove' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T10:38:31,838    vrna_sequence_remove(vrna_fold_compound_t *fc,
2022-05-20T10:38:31,838    ^
2022-05-20T10:38:31,841   sequence.c:286:1: note: 'vrna_sequence_remove' was previously declared here
2022-05-20T10:38:31,841   sequence.c:286:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T10:38:31,841   ../../src/ViennaRNA/sequence.h:81:1: warning: type of 'vrna_sequence_remove_all' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T10:38:31,842    vrna_sequence_remove_all(vrna_fold_compound_t *fc);
2022-05-20T10:38:31,842    ^
2022-05-20T10:38:31,842   ../../src/ViennaRNA/sequence.h:81:1: warning: type of 'vrna_sequence_remove_all' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T10:38:31,843    vrna_sequence_remove_all(vrna_fold_compound_t *fc);
2022-05-20T10:38:31,843    ^
2022-05-20T10:38:31,843   sequence.c:313:1: note: 'vrna_sequence_remove_all' was previously declared here
2022-05-20T10:38:31,844   sequence.c:313:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T10:38:31,844   ../../src/ViennaRNA/sequence.h:85:1: warning: type of 'vrna_sequence_prepare' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T10:38:31,844    vrna_sequence_prepare(vrna_fold_compound_t *fc);
2022-05-20T10:38:31,845    ^
2022-05-20T10:38:31,845   ../../src/ViennaRNA/sequence.h:85:1: warning: type of 'vrna_sequence_prepare' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T10:38:31,845    vrna_sequence_prepare(vrna_fold_compound_t *fc);
2022-05-20T10:38:31,846    ^
2022-05-20T10:38:31,846   sequence.c:363:1: note: 'vrna_sequence_prepare' was previously declared here
2022-05-20T10:38:31,846   sequence.c:363:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T10:38:31,847   ../../src/ViennaRNA/fold_compound.h:512:1: warning: type of 'vrna_fold_compound_free' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T10:38:31,847    vrna_fold_compound_free(vrna_fold_compound_t *fc);
2022-05-20T10:38:31,847    ^
2022-05-20T10:38:31,848   fold_compound.c:109:1: note: 'vrna_fold_compound_free' was previously declared here
2022-05-20T10:38:31,848   fold_compound.c:109:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T10:38:31,848   ../../src/ViennaRNA/part_func.h:148:1: warning: type of 'vrna_pf' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T10:38:31,849    vrna_pf(vrna_fold_compound_t  *vc,
2022-05-20T10:38:31,849    ^
2022-05-20T10:38:31,849   part_func.c:82:1: note: 'vrna_pf' was previously declared here
2022-05-20T10:38:31,850   part_func.c:82:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T10:38:31,850   ../../src/ViennaRNA/heat_capacity.h:129:1: warning: type of 'vrna_heat_capacity_cb' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T10:38:31,850    vrna_heat_capacity_cb(vrna_fold_compound_t        *fc,
2022-05-20T10:38:31,851    ^
2022-05-20T10:38:31,851   heat_capacity.c:96:1: note: 'vrna_heat_capacity_cb' was previously declared here
2022-05-20T10:38:31,851   heat_capacity.c:96:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T10:38:31,852   ../../src/ViennaRNA/mfe.h:98:1: warning: type of 'vrna_mfe' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T10:38:31,852    vrna_mfe(vrna_fold_compound_t *vc,
2022-05-20T10:38:31,852    ^
2022-05-20T10:38:31,852   mfe.c:194:1: note: 'vrna_mfe' was previously declared here
2022-05-20T10:38:31,853   mfe.c:194:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T10:38:31,950     GEN      RNA/__init__.py
2022-05-20T10:38:32,021     GEN      RNA/_RNA.cpython-37m-arm-linux-gnueabihf.so
2022-05-20T10:38:34,193     GEN      RNA/__pycache__/__init__.cpython-37.pyc
2022-05-20T10:38:34,772     GEN      RNA/__pycache__/__init__.cpython-37.opt-1.pyc
2022-05-20T10:38:36,409   make[3]: Leaving directory '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/ViennaRNA-2.5.0/interfaces/Python'
2022-05-20T10:38:36,412   Making all in Python2
2022-05-20T10:38:36,460   make[3]: Entering directory '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/ViennaRNA-2.5.0/interfaces/Python2'
2022-05-20T10:38:36,475     CXX      _RNA_la-RNA_wrap.lo
2022-05-20T10:52:21,557     CXXLD    _RNA.la
2022-05-20T11:08:27,206   ../../src/ViennaRNA/eval.h:979:1: warning: type of 'vrna_eval_move_shift_pt' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T11:08:27,221    vrna_eval_move_shift_pt(vrna_fold_compound_t  *vc,
2022-05-20T11:08:27,221    ^
2022-05-20T11:08:27,221   eval_wrappers.c:399:1: note: 'vrna_eval_move_shift_pt' was previously declared here
2022-05-20T11:08:27,222   eval_wrappers.c:399:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T11:08:27,222   ../../src/ViennaRNA/mfe.h:290:1: warning: type of 'vrna_backtrack_from_intervals' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T11:08:27,222    vrna_backtrack_from_intervals(vrna_fold_compound_t  *vc,
2022-05-20T11:08:27,223    ^
2022-05-20T11:08:27,223   mfe.c:281:1: note: 'vrna_backtrack_from_intervals' was previously declared here
2022-05-20T11:08:27,223   mfe.c:281:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T11:08:27,224   ../../src/ViennaRNA/grammar.h:89:1: warning: type of 'vrna_gr_set_aux_exp_c' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T11:08:27,224    vrna_gr_set_aux_exp_c(vrna_fold_compound_t      *fc,
2022-05-20T11:08:27,224    ^
2022-05-20T11:08:27,224   grammar.c:74:1: note: 'vrna_gr_set_aux_exp_c' was previously declared here
2022-05-20T11:08:27,225   grammar.c:74:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T11:08:27,225   ../../src/ViennaRNA/pf_multifold.h:7:1: warning: type of 'vrna_pf_multifold_prepare' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T11:08:27,225    vrna_pf_multifold_prepare(vrna_fold_compound_t *fc);
2022-05-20T11:08:27,226    ^
2022-05-20T11:08:27,226   pf_multifold.c:30:1: note: 'vrna_pf_multifold_prepare' was previously declared here
2022-05-20T11:08:27,226   pf_multifold.c:30:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T11:08:27,226   ../../src/ViennaRNA/sequence.h:94:1: warning: type of 'vrna_msa_add' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T11:08:27,227    vrna_msa_add( vrna_fold_compound_t      *fc,
2022-05-20T11:08:27,227    ^
2022-05-20T11:08:27,227   sequence.c:128:1: note: 'vrna_msa_add' was previously declared here
2022-05-20T11:08:27,228   sequence.c:128:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T11:08:27,228   ../../src/ViennaRNA/eval.h:209:1: warning: type of 'vrna_eval_structure_pt' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T11:08:27,228    vrna_eval_structure_pt(vrna_fold_compound_t *vc,
2022-05-20T11:08:27,228    ^
2022-05-20T11:08:27,229   eval_wrappers.c:285:1: note: 'vrna_eval_structure_pt' was previously declared here
2022-05-20T11:08:27,229   eval_wrappers.c:285:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T11:08:27,229   ../../src/ViennaRNA/eval.h:965:1: warning: type of 'vrna_eval_move_pt' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T11:08:27,230    vrna_eval_move_pt(vrna_fold_compound_t  *vc,
2022-05-20T11:08:27,230    ^
2022-05-20T11:08:27,230   eval.c:397:1: note: 'vrna_eval_move_pt' was previously declared here
2022-05-20T11:08:27,231   eval.c:397:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T11:08:27,231   ../../src/ViennaRNA/landscape/neighbor.h:188:1: warning: type of 'vrna_neighbors' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T11:08:27,231    vrna_neighbors(vrna_fold_compound_t *vc,
2022-05-20T11:08:27,232    ^
2022-05-20T11:08:27,232   landscape/neighbor.c:2106:1: note: 'vrna_neighbors' was previously declared here
2022-05-20T11:08:27,232   landscape/neighbor.c:2106:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T11:08:27,233   ../../src/ViennaRNA/landscape/walk.h:74:1: warning: type of 'vrna_path' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T11:08:27,234    vrna_path(vrna_fold_compound_t  *vc,
2022-05-20T11:08:27,236    ^
2022-05-20T11:08:27,236   landscape/walk.c:113:1: note: 'vrna_path' was previously declared here
2022-05-20T11:08:27,236   landscape/walk.c:113:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T11:08:27,237   ../../src/ViennaRNA/landscape/walk.h:102:1: warning: type of 'vrna_path_gradient' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T11:08:27,237    vrna_path_gradient(vrna_fold_compound_t *vc,
2022-05-20T11:08:27,237    ^
2022-05-20T11:08:27,238   landscape/walk.c:97:1: note: 'vrna_path_gradient' was previously declared here
2022-05-20T11:08:27,238   landscape/walk.c:97:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T11:08:27,238   ../../src/ViennaRNA/landscape/walk.h:130:1: warning: type of 'vrna_path_random' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T11:08:27,238    vrna_path_random(vrna_fold_compound_t *vc,
2022-05-20T11:08:27,239    ^
2022-05-20T11:08:27,239   landscape/walk.c:84:1: note: 'vrna_path_random' was previously declared here
2022-05-20T11:08:27,239   landscape/walk.c:84:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T11:08:27,240   ../../src/ViennaRNA/sequence.h:70:1: warning: type of 'vrna_sequence_add' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T11:08:27,240    vrna_sequence_add(vrna_fold_compound_t  *fc,
2022-05-20T11:08:27,240    ^
2022-05-20T11:08:27,241   ../../src/ViennaRNA/sequence.h:70:1: warning: type of 'vrna_sequence_add' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T11:08:27,241    vrna_sequence_add(vrna_fold_compound_t  *fc,
2022-05-20T11:08:27,241    ^
2022-05-20T11:08:27,242   sequence.c:58:1: note: 'vrna_sequence_add' was previously declared here
2022-05-20T11:08:27,242   sequence.c:58:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T11:08:27,242   ../../src/ViennaRNA/heat_capacity.h:92:1: warning: type of 'vrna_heat_capacity' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T11:08:27,243    vrna_heat_capacity(vrna_fold_compound_t *fc,
2022-05-20T11:08:27,243    ^
2022-05-20T11:08:27,243   heat_capacity.c:59:1: note: 'vrna_heat_capacity' was previously declared here
2022-05-20T11:08:27,244   heat_capacity.c:59:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T11:08:27,244   ../../src/ViennaRNA/subopt_zuker.h:33:1: warning: type of 'vrna_subopt_zuker' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T11:08:27,244    vrna_subopt_zuker(vrna_fold_compound_t *fc);
2022-05-20T11:08:27,245    ^
2022-05-20T11:08:27,245   ../../src/ViennaRNA/subopt_zuker.h:33:1: warning: type of 'vrna_subopt_zuker' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T11:08:27,245    vrna_subopt_zuker(vrna_fold_compound_t *fc);
2022-05-20T11:08:27,246    ^
2022-05-20T11:08:27,246   subopt_zuker.c:103:1: note: 'vrna_subopt_zuker' was previously declared here
2022-05-20T11:08:27,246   subopt_zuker.c:103:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T11:08:27,246   ../../src/ViennaRNA/fold_compound.h:433:1: warning: type of 'vrna_fold_compound' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T11:08:27,247    vrna_fold_compound(const char       *sequence,
2022-05-20T11:08:27,247    ^
2022-05-20T11:08:27,247   fold_compound.c:191:1: note: 'vrna_fold_compound' was previously declared here
2022-05-20T11:08:27,248   fold_compound.c:191:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T11:08:27,248   ../../src/ViennaRNA/params/basic.h:325:1: warning: type of 'vrna_exp_params_rescale' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T11:08:27,248    vrna_exp_params_rescale(vrna_fold_compound_t  *vc,
2022-05-20T11:08:27,248    ^
2022-05-20T11:08:27,249   params/params.c:309:1: note: 'vrna_exp_params_rescale' was previously declared here
2022-05-20T11:08:27,249   params/params.c:309:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T11:08:27,249   ../../src/ViennaRNA/params/basic.h:343:1: warning: type of 'vrna_params_reset' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T11:08:27,249    vrna_params_reset(vrna_fold_compound_t  *vc,
2022-05-20T11:08:27,250    ^
2022-05-20T11:08:27,250   params/params.c:224:1: note: 'vrna_params_reset' was previously declared here
2022-05-20T11:08:27,251   params/params.c:224:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T11:08:27,251   ../../src/ViennaRNA/loops/internal.h:66:1: warning: type of 'vrna_eval_int_loop' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T11:08:27,251    vrna_eval_int_loop(vrna_fold_compound_t *fc,
2022-05-20T11:08:27,252    ^
2022-05-20T11:08:27,252   loops/internal.c:123:1: note: 'vrna_eval_int_loop' was previously declared here
2022-05-20T11:08:27,252   loops/internal.c:123:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T11:08:27,252   ../../src/ViennaRNA/sequence.h:76:1: warning: type of 'vrna_sequence_remove' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T11:08:27,253    vrna_sequence_remove(vrna_fold_compound_t *fc,
2022-05-20T11:08:27,253    ^
2022-05-20T11:08:27,253   sequence.c:286:1: note: 'vrna_sequence_remove' was previously declared here
2022-05-20T11:08:27,254   sequence.c:286:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T11:08:27,254   ../../src/ViennaRNA/sequence.h:81:1: warning: type of 'vrna_sequence_remove_all' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T11:08:27,254    vrna_sequence_remove_all(vrna_fold_compound_t *fc);
2022-05-20T11:08:27,255    ^
2022-05-20T11:08:27,255   ../../src/ViennaRNA/sequence.h:81:1: warning: type of 'vrna_sequence_remove_all' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T11:08:27,255    vrna_sequence_remove_all(vrna_fold_compound_t *fc);
2022-05-20T11:08:27,256    ^
2022-05-20T11:08:27,256   sequence.c:313:1: note: 'vrna_sequence_remove_all' was previously declared here
2022-05-20T11:08:27,256   sequence.c:313:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T11:08:27,257   ../../src/ViennaRNA/sequence.h:85:1: warning: type of 'vrna_sequence_prepare' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T11:08:27,257    vrna_sequence_prepare(vrna_fold_compound_t *fc);
2022-05-20T11:08:27,257    ^
2022-05-20T11:08:27,258   ../../src/ViennaRNA/sequence.h:85:1: warning: type of 'vrna_sequence_prepare' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T11:08:27,258    vrna_sequence_prepare(vrna_fold_compound_t *fc);
2022-05-20T11:08:27,258    ^
2022-05-20T11:08:27,259   sequence.c:363:1: note: 'vrna_sequence_prepare' was previously declared here
2022-05-20T11:08:27,259   sequence.c:363:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T11:08:27,259   ../../src/ViennaRNA/fold_compound.h:512:1: warning: type of 'vrna_fold_compound_free' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T11:08:27,260    vrna_fold_compound_free(vrna_fold_compound_t *fc);
2022-05-20T11:08:27,260    ^
2022-05-20T11:08:27,260   fold_compound.c:109:1: note: 'vrna_fold_compound_free' was previously declared here
2022-05-20T11:08:27,261   fold_compound.c:109:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T11:08:27,261   ../../src/ViennaRNA/part_func.h:148:1: warning: type of 'vrna_pf' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T11:08:27,261    vrna_pf(vrna_fold_compound_t  *vc,
2022-05-20T11:08:27,262    ^
2022-05-20T11:08:27,262   part_func.c:82:1: note: 'vrna_pf' was previously declared here
2022-05-20T11:08:27,262   part_func.c:82:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T11:08:27,263   ../../src/ViennaRNA/heat_capacity.h:129:1: warning: type of 'vrna_heat_capacity_cb' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T11:08:27,263    vrna_heat_capacity_cb(vrna_fold_compound_t        *fc,
2022-05-20T11:08:27,263    ^
2022-05-20T11:08:27,264   heat_capacity.c:96:1: note: 'vrna_heat_capacity_cb' was previously declared here
2022-05-20T11:08:27,264   heat_capacity.c:96:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T11:08:27,265   ../../src/ViennaRNA/mfe.h:98:1: warning: type of 'vrna_mfe' does not match original declaration [-Wlto-type-mismatch]
2022-05-20T11:08:27,265    vrna_mfe(vrna_fold_compound_t *vc,
2022-05-20T11:08:27,265    ^
2022-05-20T11:08:27,266   mfe.c:194:1: note: 'vrna_mfe' was previously declared here
2022-05-20T11:08:27,266   mfe.c:194:1: note: code may be misoptimized unless -fno-strict-aliasing is used
2022-05-20T11:08:27,347     GEN      RNA/__init__.py
2022-05-20T11:08:27,416     GEN      RNA/_RNA.so
2022-05-20T11:08:29,503   make[3]: Leaving directory '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/ViennaRNA-2.5.0/interfaces/Python2'
2022-05-20T11:08:29,542   make[3]: Entering directory '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/ViennaRNA-2.5.0/interfaces'
2022-05-20T11:08:29,542   make[3]: Nothing to be done for 'all-am'.
2022-05-20T11:08:29,543   make[3]: Leaving directory '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/ViennaRNA-2.5.0/interfaces'
2022-05-20T11:08:29,545   make[2]: Leaving directory '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/ViennaRNA-2.5.0/interfaces'
2022-05-20T11:08:29,548   Making all in tests
2022-05-20T11:08:29,617   make[2]: Entering directory '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/ViennaRNA-2.5.0/tests'
2022-05-20T11:08:29,617   make  all-am
2022-05-20T11:08:29,672   make[3]: Entering directory '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/ViennaRNA-2.5.0/tests'
2022-05-20T11:08:29,672   make[3]: Nothing to be done for 'all-am'.
2022-05-20T11:08:29,673   make[3]: Leaving directory '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/ViennaRNA-2.5.0/tests'
2022-05-20T11:08:29,673   make[2]: Leaving directory '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/ViennaRNA-2.5.0/tests'
2022-05-20T11:08:29,677   Making all in examples
2022-05-20T11:08:29,714   make[2]: Entering directory '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/ViennaRNA-2.5.0/examples'
2022-05-20T11:08:29,714   make[2]: Nothing to be done for 'all'.
2022-05-20T11:08:29,715   make[2]: Leaving directory '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/ViennaRNA-2.5.0/examples'
2022-05-20T11:08:29,718   Making all in packaging/macosx
2022-05-20T11:08:29,747   make[2]: Entering directory '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/ViennaRNA-2.5.0/packaging/macosx'
2022-05-20T11:08:29,748   make[2]: Nothing to be done for 'all'.
2022-05-20T11:08:29,748   make[2]: Leaving directory '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/ViennaRNA-2.5.0/packaging/macosx'
2022-05-20T11:08:29,777   make[2]: Entering directory '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/ViennaRNA-2.5.0'
2022-05-20T11:08:29,806   make[2]: Leaving directory '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/ViennaRNA-2.5.0'
2022-05-20T11:08:29,809   make[1]: Leaving directory '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/ViennaRNA-2.5.0'
2022-05-20T11:08:29,893   Making install in src
2022-05-20T11:08:29,921   make[1]: Entering directory '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/ViennaRNA-2.5.0/src'
2022-05-20T11:08:29,966   Making install in ViennaRNA
2022-05-20T11:08:30,582   make[2]: Entering directory '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/ViennaRNA-2.5.0/src/ViennaRNA'
2022-05-20T11:08:30,627   Making install in static
2022-05-20T11:08:30,670   make[3]: Entering directory '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/ViennaRNA-2.5.0/src/ViennaRNA/static'
2022-05-20T11:08:30,670   make  install-am
2022-05-20T11:08:30,707   make[4]: Entering directory '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/ViennaRNA-2.5.0/src/ViennaRNA/static'
2022-05-20T11:08:30,742   make[5]: Entering directory '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/ViennaRNA-2.5.0/src/ViennaRNA/static'
2022-05-20T11:08:30,743   make[5]: Nothing to be done for 'install-exec-am'.
2022-05-20T11:08:30,743   make[5]: Nothing to be done for 'install-data-am'.
2022-05-20T11:08:30,744   make[5]: Leaving directory '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/ViennaRNA-2.5.0/src/ViennaRNA/static'
2022-05-20T11:08:30,744   make[4]: Leaving directory '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/ViennaRNA-2.5.0/src/ViennaRNA/static'
2022-05-20T11:08:30,745   make[3]: Leaving directory '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/ViennaRNA-2.5.0/src/ViennaRNA/static'
2022-05-20T11:08:32,320   make[3]: Entering directory '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/ViennaRNA-2.5.0/src/ViennaRNA'
2022-05-20T11:08:33,491   make[4]: Entering directory '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/ViennaRNA-2.5.0/src/ViennaRNA'
2022-05-20T11:08:33,506    /usr/bin/mkdir -p '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/9631aece-8c66-4c27-bdb2-2456435f39c0/lib'
2022-05-20T11:08:33,526    /bin/bash ../../libtool   --mode=install /usr/bin/install -c   libRNA.la '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/9631aece-8c66-4c27-bdb2-2456435f39c0/lib'
2022-05-20T11:08:33,855   libtool: install: /usr/bin/install -c .libs/libRNA.lai /tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/9631aece-8c66-4c27-bdb2-2456435f39c0/lib/libRNA.la
2022-05-20T11:08:33,897   libtool: install: /usr/bin/install -c .libs/libRNA.a /tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/9631aece-8c66-4c27-bdb2-2456435f39c0/lib/libRNA.a
2022-05-20T11:08:37,245   libtool: install: chmod 644 /tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/9631aece-8c66-4c27-bdb2-2456435f39c0/lib/libRNA.a
2022-05-20T11:08:37,279   libtool: install: gcc-ranlib /tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/9631aece-8c66-4c27-bdb2-2456435f39c0/lib/libRNA.a
2022-05-20T11:08:42,162   libtool: finish: PATH="/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/sbin" ldconfig -n /tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/9631aece-8c66-4c27-bdb2-2456435f39c0/lib
2022-05-20T11:08:42,224   ----------------------------------------------------------------------
2022-05-20T11:08:42,225   Libraries have been installed in:
2022-05-20T11:08:42,225      /tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/9631aece-8c66-4c27-bdb2-2456435f39c0/lib

2022-05-20T11:08:42,226   If you ever happen to want to link against installed libraries
2022-05-20T11:08:42,226   in a given directory, LIBDIR, you must either use libtool, and
2022-05-20T11:08:42,227   specify the full pathname of the library, or use the '-LLIBDIR'
2022-05-20T11:08:42,227   flag during linking and do at least one of the following:
2022-05-20T11:08:42,227      - add LIBDIR to the 'LD_LIBRARY_PATH' environment variable
2022-05-20T11:08:42,228        during execution
2022-05-20T11:08:42,228      - add LIBDIR to the 'LD_RUN_PATH' environment variable
2022-05-20T11:08:42,228        during linking
2022-05-20T11:08:42,229      - use the '-Wl,-rpath -Wl,LIBDIR' linker flag
2022-05-20T11:08:42,229      - have your system administrator add LIBDIR to '/etc/ld.so.conf'

2022-05-20T11:08:42,230   See any operating system documentation about shared libraries for
2022-05-20T11:08:42,230   more information, such as the ld(1) and ld.so(8) manual pages.
2022-05-20T11:08:42,230   ----------------------------------------------------------------------
2022-05-20T11:08:42,246    /usr/bin/mkdir -p '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/9631aece-8c66-4c27-bdb2-2456435f39c0/include/ViennaRNA'
2022-05-20T11:08:42,288    /usr/bin/install -c -m 644 vrna_config.h '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/9631aece-8c66-4c27-bdb2-2456435f39c0/include/ViennaRNA'
2022-05-20T11:08:42,347    /usr/bin/mkdir -p '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/9631aece-8c66-4c27-bdb2-2456435f39c0/include/ViennaRNA'
2022-05-20T11:08:42,392    /usr/bin/install -c -m 644 concentrations.h wrap_dlib.h pair_mat.h RNAstruct.h dist_vars.h mfe.h mfe_window.h fold.h part_func.h part_func_window.h pf_multifold.h stringdist.h edit_cost.h fold_vars.h profiledist.h treedist.h inverse.h subopt.h subopt_zuker.h cofold.h duplex.h alifold.h part_func_co.h ProfileAln.h LPfold.h Lfold.h part_func_up.h ribo.h findpath.h data_structures.h char_stream.h stream_output.h fold_compound.h MEA.h mm.h loop_energies.h exterior_loops.h hairpin_loops.h interior_loops.h multibranch_loops.h '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/9631aece-8c66-4c27-bdb2-2456435f39c0/include/ViennaRNA'
2022-05-20T11:08:42,526    /usr/bin/install -c -m 644 2Dfold.h 2Dpfold.h PKplex.h pk_plex.h ali_plex.h plex.h snofold.h snoop.h move_set.h gquad.h constraints.h eval.h perturbation_fold.h centroid.h utils.h structure_utils.h string_utils.h aln_util.h model.h dp_matrices.h PS_dot.h plot_structure.h plot_aln.h plot_utils.h plot_layouts.h naview.h boltzmann_sampling.h equilibrium_probs.h constraints_ligand.h constraints_SHAPE.h constraints_hard.h constraints_soft.h alphabet.h sequence.h grammar.h structured_domains.h unstructured_domains.h file_utils.h file_formats.h file_formats_msa.h '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/9631aece-8c66-4c27-bdb2-2456435f39c0/include/ViennaRNA'
2022-05-20T11:08:42,662    /usr/bin/install -c -m 644 energy_par.h energy_const.h params.h read_epars.h convert_epars.h commands.h units.h combinatorics.h neighbor.h walk.h heat_capacity.h svm_utils.h ../libsvm-3.25/svm.h ../json/json.h zscore.h '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/9631aece-8c66-4c27-bdb2-2456435f39c0/include/ViennaRNA'
2022-05-20T11:08:42,737    /usr/bin/mkdir -p '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/9631aece-8c66-4c27-bdb2-2456435f39c0/include/ViennaRNA/constraints'
2022-05-20T11:08:42,781    /usr/bin/install -c -m 644 constraints/basic.h constraints/ligand.h constraints/SHAPE.h constraints/hard.h constraints/soft.h '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/9631aece-8c66-4c27-bdb2-2456435f39c0/include/ViennaRNA/constraints'
2022-05-20T11:08:42,835    /usr/bin/mkdir -p '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/9631aece-8c66-4c27-bdb2-2456435f39c0/include/ViennaRNA/datastructures'
2022-05-20T11:08:42,878    /usr/bin/install -c -m 644 datastructures/basic.h datastructures/lists.h datastructures/char_stream.h datastructures/stream_output.h datastructures/hash_tables.h datastructures/heap.h '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/9631aece-8c66-4c27-bdb2-2456435f39c0/include/ViennaRNA/datastructures'
2022-05-20T11:08:42,933    /usr/bin/mkdir -p '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/9631aece-8c66-4c27-bdb2-2456435f39c0/include/ViennaRNA/io'
2022-05-20T11:08:42,974    /usr/bin/install -c -m 644 io/utils.h io/file_formats.h io/file_formats_msa.h '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/9631aece-8c66-4c27-bdb2-2456435f39c0/include/ViennaRNA/io'
2022-05-20T11:08:43,021    /usr/bin/mkdir -p '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/9631aece-8c66-4c27-bdb2-2456435f39c0/include/ViennaRNA/landscape'
2022-05-20T11:08:43,063    /usr/bin/install -c -m 644 landscape/paths.h landscape/findpath.h landscape/neighbor.h landscape/walk.h landscape/move.h '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/9631aece-8c66-4c27-bdb2-2456435f39c0/include/ViennaRNA/landscape'
2022-05-20T11:08:43,116    /usr/bin/mkdir -p '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/9631aece-8c66-4c27-bdb2-2456435f39c0/include/ViennaRNA/loops'
2022-05-20T11:08:43,165    /usr/bin/install -c -m 644 loops/all.h loops/external.h loops/hairpin.h loops/internal.h loops/multibranch.h '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/9631aece-8c66-4c27-bdb2-2456435f39c0/include/ViennaRNA/loops'
2022-05-20T11:08:43,220    /usr/bin/mkdir -p '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/9631aece-8c66-4c27-bdb2-2456435f39c0/include/ViennaRNA/params'
2022-05-20T11:08:43,266    /usr/bin/install -c -m 644 params/default.h params/constants.h params/basic.h params/io.h params/convert.h '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/9631aece-8c66-4c27-bdb2-2456435f39c0/include/ViennaRNA/params'
2022-05-20T11:08:43,319    /usr/bin/mkdir -p '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/9631aece-8c66-4c27-bdb2-2456435f39c0/include/ViennaRNA/plotting'
2022-05-20T11:08:43,362    /usr/bin/install -c -m 644 plotting/alignments.h plotting/layouts.h plotting/probabilities.h plotting/structures.h plotting/utils.h plotting/naview.h '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/9631aece-8c66-4c27-bdb2-2456435f39c0/include/ViennaRNA/plotting'
2022-05-20T11:08:43,416    /usr/bin/mkdir -p '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/9631aece-8c66-4c27-bdb2-2456435f39c0/include/ViennaRNA/plotting/RNApuzzler'
2022-05-20T11:08:43,459    /usr/bin/install -c -m 644 plotting/RNApuzzler/RNApuzzler.h plotting/RNApuzzler/RNAturtle.h '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/9631aece-8c66-4c27-bdb2-2456435f39c0/include/ViennaRNA/plotting/RNApuzzler'
2022-05-20T11:08:43,501    /usr/bin/mkdir -p '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/9631aece-8c66-4c27-bdb2-2456435f39c0/include/ViennaRNA/search'
2022-05-20T11:08:43,543    /usr/bin/install -c -m 644 search/BoyerMoore.h '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/9631aece-8c66-4c27-bdb2-2456435f39c0/include/ViennaRNA/search'
2022-05-20T11:08:43,585    /usr/bin/mkdir -p '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/9631aece-8c66-4c27-bdb2-2456435f39c0/include/ViennaRNA/utils'
2022-05-20T11:08:43,626    /usr/bin/install -c -m 644 utils/basic.h utils/strings.h utils/structures.h utils/alignments.h utils/higher_order_functions.h utils/cpu.h utils/units.h utils/svm.h '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/9631aece-8c66-4c27-bdb2-2456435f39c0/include/ViennaRNA/utils'
2022-05-20T11:08:43,673   make[4]: Leaving directory '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/ViennaRNA-2.5.0/src/ViennaRNA'
2022-05-20T11:08:43,676   make[3]: Leaving directory '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/ViennaRNA-2.5.0/src/ViennaRNA'
2022-05-20T11:08:43,681   make[2]: Leaving directory '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/ViennaRNA-2.5.0/src/ViennaRNA'
2022-05-20T11:08:43,684   Making install in bin
2022-05-20T11:08:44,098   make[2]: Entering directory '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/ViennaRNA-2.5.0/src/bin'
2022-05-20T11:08:44,360   make[3]: Entering directory '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/ViennaRNA-2.5.0/src/bin'
2022-05-20T11:08:44,375    /usr/bin/mkdir -p '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/9631aece-8c66-4c27-bdb2-2456435f39c0/bin'
2022-05-20T11:08:44,434     /bin/bash ../../libtool   --mode=install /usr/bin/install -c RNAfold RNAeval RNAheat RNApdist RNAdistance RNAinverse RNAplot RNAsubopt RNALfold RNAcofold RNApaln RNAduplex RNAalifold RNAplfold RNAup RNAaliduplex RNALalifold RNA2Dfold RNAparconv RNAPKplex RNAplex RNAsnoop RNApvmin RNAdos RNAmultifold '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/9631aece-8c66-4c27-bdb2-2456435f39c0/bin'
2022-05-20T11:08:44,810   libtool: install: /usr/bin/install -c RNAfold /tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/9631aece-8c66-4c27-bdb2-2456435f39c0/bin/RNAfold
2022-05-20T11:08:45,108   libtool: install: /usr/bin/install -c RNAeval /tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/9631aece-8c66-4c27-bdb2-2456435f39c0/bin/RNAeval
2022-05-20T11:08:45,234   libtool: install: /usr/bin/install -c RNAheat /tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/9631aece-8c66-4c27-bdb2-2456435f39c0/bin/RNAheat
2022-05-20T11:08:45,443   libtool: install: /usr/bin/install -c RNApdist /tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/9631aece-8c66-4c27-bdb2-2456435f39c0/bin/RNApdist
2022-05-20T11:08:45,624   libtool: install: /usr/bin/install -c RNAdistance /tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/9631aece-8c66-4c27-bdb2-2456435f39c0/bin/RNAdistance
2022-05-20T11:08:45,700   libtool: install: /usr/bin/install -c RNAinverse /tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/9631aece-8c66-4c27-bdb2-2456435f39c0/bin/RNAinverse
2022-05-20T11:08:45,884   libtool: install: /usr/bin/install -c RNAplot /tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/9631aece-8c66-4c27-bdb2-2456435f39c0/bin/RNAplot
2022-05-20T11:08:45,998   libtool: install: /usr/bin/install -c RNAsubopt /tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/9631aece-8c66-4c27-bdb2-2456435f39c0/bin/RNAsubopt
2022-05-20T11:08:46,266   libtool: install: /usr/bin/install -c RNALfold /tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/9631aece-8c66-4c27-bdb2-2456435f39c0/bin/RNALfold
2022-05-20T11:08:46,472   libtool: install: /usr/bin/install -c RNAcofold /tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/9631aece-8c66-4c27-bdb2-2456435f39c0/bin/RNAcofold
2022-05-20T11:08:46,825   libtool: install: /usr/bin/install -c RNApaln /tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/9631aece-8c66-4c27-bdb2-2456435f39c0/bin/RNApaln
2022-05-20T11:08:47,055   libtool: install: /usr/bin/install -c RNAduplex /tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/9631aece-8c66-4c27-bdb2-2456435f39c0/bin/RNAduplex
2022-05-20T11:08:47,199   libtool: install: /usr/bin/install -c RNAalifold /tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/9631aece-8c66-4c27-bdb2-2456435f39c0/bin/RNAalifold
2022-05-20T11:08:47,476   libtool: install: /usr/bin/install -c RNAplfold /tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/9631aece-8c66-4c27-bdb2-2456435f39c0/bin/RNAplfold
2022-05-20T11:08:47,657   libtool: install: /usr/bin/install -c RNAup /tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/9631aece-8c66-4c27-bdb2-2456435f39c0/bin/RNAup
2022-05-20T11:08:47,887   libtool: install: /usr/bin/install -c RNAaliduplex /tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/9631aece-8c66-4c27-bdb2-2456435f39c0/bin/RNAaliduplex
2022-05-20T11:08:48,028   libtool: install: /usr/bin/install -c RNALalifold /tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/9631aece-8c66-4c27-bdb2-2456435f39c0/bin/RNALalifold
2022-05-20T11:08:48,243   libtool: install: /usr/bin/install -c RNA2Dfold /tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/9631aece-8c66-4c27-bdb2-2456435f39c0/bin/RNA2Dfold
2022-05-20T11:08:48,457   libtool: install: /usr/bin/install -c RNAparconv /tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/9631aece-8c66-4c27-bdb2-2456435f39c0/bin/RNAparconv
2022-05-20T11:08:48,545   libtool: install: /usr/bin/install -c RNAPKplex /tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/9631aece-8c66-4c27-bdb2-2456435f39c0/bin/RNAPKplex
2022-05-20T11:08:48,789   libtool: install: /usr/bin/install -c RNAplex /tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/9631aece-8c66-4c27-bdb2-2456435f39c0/bin/RNAplex
2022-05-20T11:08:49,012   libtool: install: /usr/bin/install -c RNAsnoop /tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/9631aece-8c66-4c27-bdb2-2456435f39c0/bin/RNAsnoop
2022-05-20T11:08:49,170   libtool: install: /usr/bin/install -c RNApvmin /tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/9631aece-8c66-4c27-bdb2-2456435f39c0/bin/RNApvmin
2022-05-20T11:08:49,395   libtool: install: /usr/bin/install -c RNAdos /tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/9631aece-8c66-4c27-bdb2-2456435f39c0/bin/RNAdos
2022-05-20T11:08:49,574   libtool: install: /usr/bin/install -c RNAmultifold /tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/9631aece-8c66-4c27-bdb2-2456435f39c0/bin/RNAmultifold
2022-05-20T11:08:50,174   make[3]: Nothing to be done for 'install-data-am'.
2022-05-20T11:08:50,174   make[3]: Leaving directory '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/ViennaRNA-2.5.0/src/bin'
2022-05-20T11:08:50,175   make[2]: Leaving directory '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/ViennaRNA-2.5.0/src/bin'
2022-05-20T11:08:50,178   Making install in Utils
2022-05-20T11:08:50,264   make[2]: Entering directory '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/ViennaRNA-2.5.0/src/Utils'
2022-05-20T11:08:50,354   make[3]: Entering directory '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/ViennaRNA-2.5.0/src/Utils'
2022-05-20T11:08:50,370    /usr/bin/mkdir -p '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/9631aece-8c66-4c27-bdb2-2456435f39c0/bin'
2022-05-20T11:08:50,429     /bin/bash ../../libtool   --mode=install /usr/bin/install -c b2ct popt ct2db '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/9631aece-8c66-4c27-bdb2-2456435f39c0/bin'
2022-05-20T11:08:50,769   libtool: install: /usr/bin/install -c b2ct /tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/9631aece-8c66-4c27-bdb2-2456435f39c0/bin/b2ct
2022-05-20T11:08:50,831   libtool: install: /usr/bin/install -c popt /tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/9631aece-8c66-4c27-bdb2-2456435f39c0/bin/popt
2022-05-20T11:08:50,901   libtool: install: /usr/bin/install -c ct2db /tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/9631aece-8c66-4c27-bdb2-2456435f39c0/bin/ct2db
2022-05-20T11:08:50,972    /usr/bin/mkdir -p '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/9631aece-8c66-4c27-bdb2-2456435f39c0/share/ViennaRNA/bin'
2022-05-20T11:08:51,021    /usr/bin/install -c b2mt.pl dpzoom.pl mountain.pl relplot.pl rotate_ss.pl cmount.pl coloraln.pl refold.pl switch.pl RNAdesign.pl '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/9631aece-8c66-4c27-bdb2-2456435f39c0/share/ViennaRNA/bin'
2022-05-20T11:08:51,074   make  install-data-hook
2022-05-20T11:08:51,124   make[4]: Entering directory '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/ViennaRNA-2.5.0/src/Utils'
2022-05-20T11:08:51,137     GEN      install-data-hook
2022-05-20T11:08:51,405   make[4]: Leaving directory '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/ViennaRNA-2.5.0/src/Utils'
2022-05-20T11:08:51,406   make[3]: Leaving directory '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/ViennaRNA-2.5.0/src/Utils'
2022-05-20T11:08:51,408   make[2]: Leaving directory '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/ViennaRNA-2.5.0/src/Utils'
2022-05-20T11:08:51,434   make[2]: Entering directory '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/ViennaRNA-2.5.0/src'
2022-05-20T11:08:51,468   make[3]: Entering directory '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/ViennaRNA-2.5.0/src'
2022-05-20T11:08:51,468   make[3]: Nothing to be done for 'install-exec-am'.
2022-05-20T11:08:51,469   make[3]: Nothing to be done for 'install-data-am'.
2022-05-20T11:08:51,469   make[3]: Leaving directory '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/ViennaRNA-2.5.0/src'
2022-05-20T11:08:51,470   make[2]: Leaving directory '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/ViennaRNA-2.5.0/src'
2022-05-20T11:08:51,472   make[1]: Leaving directory '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/ViennaRNA-2.5.0/src'
2022-05-20T11:08:51,475   Making install in man
2022-05-20T11:08:51,512   make[1]: Entering directory '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/ViennaRNA-2.5.0/man'
2022-05-20T11:08:51,548   make[2]: Entering directory '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/ViennaRNA-2.5.0/man'
2022-05-20T11:08:51,548   make[2]: Nothing to be done for 'install-exec-am'.
2022-05-20T11:08:51,588    /usr/bin/mkdir -p '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/9631aece-8c66-4c27-bdb2-2456435f39c0/share/info'
2022-05-20T11:08:51,673    /usr/bin/install -c -m 644 ./RNAlib.info '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/9631aece-8c66-4c27-bdb2-2456435f39c0/share/info'
2022-05-20T11:08:51,749    /usr/bin/mkdir -p '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/9631aece-8c66-4c27-bdb2-2456435f39c0/share/man/man1'
2022-05-20T11:08:51,847    /usr/bin/install -c -m 644 RNA2Dfold.1 RNAaliduplex.1 RNAalifold.1 RNAcofold.1 RNAduplex.1 RNAeval.1 RNAfold.1 RNAheat.1 RNAinverse.1 RNALalifold.1 RNALfold.1 RNAmultifold.1 RNApaln.1 RNAparconv.1 RNAplfold.1 RNAplot.1 RNApvmin.1 RNAsubopt.1 RNAup.1 RNAPKplex.1 RNAsnoop.1 RNAplex.1 RNAdistance.1 RNApdist.1 RNAdos.1 ct2db.1 '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/9631aece-8c66-4c27-bdb2-2456435f39c0/share/man/man1'
2022-05-20T11:08:51,969   make[2]: Leaving directory '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/ViennaRNA-2.5.0/man'
2022-05-20T11:08:51,970   make[1]: Leaving directory '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/ViennaRNA-2.5.0/man'
2022-05-20T11:08:51,973   Making install in misc
2022-05-20T11:08:52,001   make[1]: Entering directory '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/ViennaRNA-2.5.0/misc'
2022-05-20T11:08:52,036   make[2]: Entering directory '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/ViennaRNA-2.5.0/misc'
2022-05-20T11:08:52,037   make[2]: Nothing to be done for 'install-exec-am'.
2022-05-20T11:08:52,052    /usr/bin/mkdir -p '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/9631aece-8c66-4c27-bdb2-2456435f39c0/share/ViennaRNA'
2022-05-20T11:08:52,097    /usr/bin/install -c -m 644 2Dlandscape_mfe.gri 2Dlandscape_pf.gri rna_turner1999.par rna_turner2004.par rna_andronescu2007.par dna_mathews1999.par dna_mathews2004.par rna_langdon2018.par rna_misc_special_hairpins.par 2Dlandscape.R '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/9631aece-8c66-4c27-bdb2-2456435f39c0/share/ViennaRNA'
2022-05-20T11:08:52,241   make[2]: Leaving directory '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/ViennaRNA-2.5.0/misc'
2022-05-20T11:08:52,242   make[1]: Leaving directory '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/ViennaRNA-2.5.0/misc'
2022-05-20T11:08:52,245   Making install in doc
2022-05-20T11:08:52,273   make[1]: Entering directory '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/ViennaRNA-2.5.0/doc'
2022-05-20T11:08:52,318   Making install in CLA
2022-05-20T11:08:52,345   make[2]: Entering directory '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/ViennaRNA-2.5.0/doc/CLA'
2022-05-20T11:08:52,381   make[3]: Entering directory '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/ViennaRNA-2.5.0/doc/CLA'
2022-05-20T11:08:52,381   make[3]: Nothing to be done for 'install-exec-am'.
2022-05-20T11:08:52,382   make[3]: Nothing to be done for 'install-data-am'.
2022-05-20T11:08:52,382   make[3]: Leaving directory '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/ViennaRNA-2.5.0/doc/CLA'
2022-05-20T11:08:52,383   make[2]: Leaving directory '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/ViennaRNA-2.5.0/doc/CLA'
2022-05-20T11:08:52,411   make[2]: Entering directory '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/ViennaRNA-2.5.0/doc'
2022-05-20T11:08:52,446   make[3]: Entering directory '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/ViennaRNA-2.5.0/doc'
2022-05-20T11:08:52,447   make[3]: Nothing to be done for 'install-exec-am'.
2022-05-20T11:08:52,462    /usr/bin/mkdir -p '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/9631aece-8c66-4c27-bdb2-2456435f39c0/share/ViennaRNA'
2022-05-20T11:08:52,504    /usr/bin/install -c -m 644 viennarna.bib DoxygenLayout.xml '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/9631aece-8c66-4c27-bdb2-2456435f39c0/share/ViennaRNA'
2022-05-20T11:08:52,533   make[3]: Leaving directory '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/ViennaRNA-2.5.0/doc'
2022-05-20T11:08:52,534   make[2]: Leaving directory '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/ViennaRNA-2.5.0/doc'
2022-05-20T11:08:52,537   make[1]: Leaving directory '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/ViennaRNA-2.5.0/doc'
2022-05-20T11:08:52,540   Making install in RNA-Tutorial
2022-05-20T11:08:52,567   make[1]: Entering directory '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/ViennaRNA-2.5.0/RNA-Tutorial'
2022-05-20T11:08:52,603   make[2]: Entering directory '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/ViennaRNA-2.5.0/RNA-Tutorial'
2022-05-20T11:08:52,604   make[2]: Nothing to be done for 'install-exec-am'.
2022-05-20T11:08:52,953   make[2]: Leaving directory '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/ViennaRNA-2.5.0/RNA-Tutorial'
2022-05-20T11:08:52,954   make[1]: Leaving directory '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/ViennaRNA-2.5.0/RNA-Tutorial'
2022-05-20T11:08:52,957   Making install in interfaces
2022-05-20T11:08:52,984   make[1]: Entering directory '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/ViennaRNA-2.5.0/interfaces'
2022-05-20T11:08:53,029   Making install in Python
2022-05-20T11:08:53,191   make[2]: Entering directory '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/ViennaRNA-2.5.0/interfaces/Python'
2022-05-20T11:08:53,243   make[3]: Entering directory '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/ViennaRNA-2.5.0/interfaces/Python'
2022-05-20T11:08:53,257    /usr/bin/mkdir -p '/usr/lib/python3.7/dist-packages/RNA'
2022-05-20T11:08:53,274   /usr/bin/mkdir: cannot create directory ‘/usr/lib/python3.7/dist-packages’: Permission denied
2022-05-20T11:08:53,277   make[3]: *** [Makefile:770: install-pkgpyexecDATA] Error 1
2022-05-20T11:08:53,278   make[3]: Leaving directory '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/ViennaRNA-2.5.0/interfaces/Python'
2022-05-20T11:08:53,279   make[2]: *** [Makefile:887: install-am] Error 2
2022-05-20T11:08:53,279   make[2]: Leaving directory '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/ViennaRNA-2.5.0/interfaces/Python'
2022-05-20T11:08:53,284   make[1]: *** [Makefile:632: install-recursive] Error 1
2022-05-20T11:08:53,285   make[1]: Leaving directory '/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/ViennaRNA-2.5.0/interfaces'
2022-05-20T11:08:53,289   make: *** [Makefile:689: install-recursive] Error 1
2022-05-20T11:08:53,292   Traceback (most recent call last):
2022-05-20T11:08:53,293     File "<string>", line 36, in <module>
2022-05-20T11:08:53,295     File "<pip-setuptools-caller>", line 34, in <module>
2022-05-20T11:08:53,295     File "/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/setup.py", line 198, in <module>
2022-05-20T11:08:53,297       'Source'     : 'https://github.com/ayaanhossain/ViennaRNA/tree/master/viennarna',
2022-05-20T11:08:53,298     File "/usr/local/lib/python3.7/dist-packages/setuptools/__init__.py", line 87, in setup
2022-05-20T11:08:53,306       return distutils.core.setup(**attrs)
2022-05-20T11:08:53,307     File "/usr/local/lib/python3.7/dist-packages/setuptools/_distutils/core.py", line 148, in setup
2022-05-20T11:08:53,327       return run_commands(dist)
2022-05-20T11:08:53,327     File "/usr/local/lib/python3.7/dist-packages/setuptools/_distutils/core.py", line 163, in run_commands
2022-05-20T11:08:53,328       dist.run_commands()
2022-05-20T11:08:53,328     File "/usr/local/lib/python3.7/dist-packages/setuptools/_distutils/dist.py", line 967, in run_commands
2022-05-20T11:08:53,330       self.run_command(cmd)
2022-05-20T11:08:53,331     File "/usr/local/lib/python3.7/dist-packages/setuptools/dist.py", line 1229, in run_command
2022-05-20T11:08:53,333       super().run_command(command)
2022-05-20T11:08:53,334     File "/usr/local/lib/python3.7/dist-packages/setuptools/_distutils/dist.py", line 986, in run_command
2022-05-20T11:08:53,336       cmd_obj.run()
2022-05-20T11:08:53,336     File "/usr/lib/python3/dist-packages/wheel/bdist_wheel.py", line 224, in run
2022-05-20T11:08:53,343       self.run_command('install')
2022-05-20T11:08:53,344     File "/usr/local/lib/python3.7/dist-packages/setuptools/_distutils/cmd.py", line 313, in run_command
2022-05-20T11:08:53,354       self.distribution.run_command(command)
2022-05-20T11:08:53,355     File "/usr/local/lib/python3.7/dist-packages/setuptools/dist.py", line 1229, in run_command
2022-05-20T11:08:53,357       super().run_command(command)
2022-05-20T11:08:53,357     File "/usr/local/lib/python3.7/dist-packages/setuptools/_distutils/dist.py", line 986, in run_command
2022-05-20T11:08:53,359       cmd_obj.run()
2022-05-20T11:08:53,360     File "/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/setup.py", line 107, in run
2022-05-20T11:08:53,360       self.compile_and_install_ViennaRNA()
2022-05-20T11:08:53,361     File "/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/setup.py", line 101, in compile_and_install_ViennaRNA
2022-05-20T11:08:53,361       subprocess.check_call('make install', cwd=src_path, shell=True)
2022-05-20T11:08:53,362     File "/usr/lib/python3.7/subprocess.py", line 347, in check_call
2022-05-20T11:08:53,363       raise CalledProcessError(retcode, cmd)
2022-05-20T11:08:53,363   subprocess.CalledProcessError: Command 'make install' returned non-zero exit status 2.
2022-05-20T11:08:53,853   ERROR: [present-rich] python setup.py bdist_wheel exited with 1
2022-05-20T11:08:53,894   [bold magenta]full command[/]: [blue]/usr/bin/python3 -u -c '
2022-05-20T11:08:53,894   exec(compile('"'"''"'"''"'"'
2022-05-20T11:08:53,894   # This is <pip-setuptools-caller> -- a caller that pip uses to run setup.py
2022-05-20T11:08:53,894   #
2022-05-20T11:08:53,894   # - It imports setuptools before invoking setup.py, to enable projects that directly
2022-05-20T11:08:53,894   #   import from `distutils.core` to work with newer packaging standards.
2022-05-20T11:08:53,894   # - It provides a clear error message when setuptools is not installed.
2022-05-20T11:08:53,894   # - It sets `sys.argv[0]` to the underlying `setup.py`, when invoking `setup.py` so
2022-05-20T11:08:53,894   #   setuptools doesn'"'"'t think the script is `-c`. This avoids the following warning:
2022-05-20T11:08:53,894   #     manifest_maker: standard file '"'"'-c'"'"' not found".
2022-05-20T11:08:53,894   # - It generates a shim setup.py, for handling setup.cfg-only projects.
2022-05-20T11:08:53,894   import os, sys, tokenize
2022-05-20T11:08:53,894   
2022-05-20T11:08:53,894   try:
2022-05-20T11:08:53,894       import setuptools
2022-05-20T11:08:53,894   except ImportError as error:
2022-05-20T11:08:53,894       print(
2022-05-20T11:08:53,894           "ERROR: Can not execute `setup.py` since setuptools is not available in "
2022-05-20T11:08:53,894           "the build environment.",
2022-05-20T11:08:53,894           file=sys.stderr,
2022-05-20T11:08:53,894       )
2022-05-20T11:08:53,894       sys.exit(1)
2022-05-20T11:08:53,894   
2022-05-20T11:08:53,894   __file__ = %r
2022-05-20T11:08:53,894   sys.argv[0] = __file__
2022-05-20T11:08:53,894   
2022-05-20T11:08:53,894   if os.path.exists(__file__):
2022-05-20T11:08:53,894       filename = __file__
2022-05-20T11:08:53,894       with tokenize.open(__file__) as f:
2022-05-20T11:08:53,894           setup_py_code = f.read()
2022-05-20T11:08:53,894   else:
2022-05-20T11:08:53,894       filename = "<auto-generated setuptools caller>"
2022-05-20T11:08:53,894       setup_py_code = "from setuptools import setup; setup()"
2022-05-20T11:08:53,894   
2022-05-20T11:08:53,894   exec(compile(setup_py_code, filename, "exec"))
2022-05-20T11:08:53,894   '"'"''"'"''"'"' % ('"'"'/tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/setup.py'"'"',), "<pip-setuptools-caller>", "exec"))' bdist_wheel -d /tmp/pip-wheel-f5x0n8y1[/]
2022-05-20T11:08:53,894   [bold magenta]cwd[/]: /tmp/pip-wheel-s0gmecn4/viennarna_5aea862176f54089ab23bdf63cb6a933/
2022-05-20T11:08:53,895   Building wheel for viennarna (setup.py): finished with status 'error'
2022-05-20T11:08:53,897   ERROR: Failed building wheel for viennarna
2022-05-20T11:08:53,899   Running setup.py clean for viennarna
2022-05-20T11:08:53,901   Running command python setup.py clean
2022-05-20T11:08:59,297   running clean
2022-05-20T11:08:59,391   removing 'build/lib' (and everything under it)
2022-05-20T11:08:59,394   'build/bdist.linux-armv7l' does not exist -- can't clean it
2022-05-20T11:08:59,395   'build/scripts-3.7' does not exist -- can't clean it
2022-05-20T11:08:59,395   removing 'build'
2022-05-20T11:08:59,605 Failed to build viennarna
2022-05-20T11:08:59,609 ERROR: Failed to build one or more wheels
2022-05-20T11:08:59,612 Exception information:
2022-05-20T11:08:59,612 Traceback (most recent call last):
2022-05-20T11:08:59,612   File "/usr/local/lib/python3.7/dist-packages/pip/_internal/cli/base_command.py", line 167, in exc_logging_wrapper
2022-05-20T11:08:59,612     status = run_func(*args)
2022-05-20T11:08:59,612   File "/usr/local/lib/python3.7/dist-packages/pip/_internal/cli/req_command.py", line 205, in wrapper
2022-05-20T11:08:59,612     return func(self, options, args)
2022-05-20T11:08:59,612   File "/usr/local/lib/python3.7/dist-packages/pip/_internal/commands/wheel.py", line 175, in run
2022-05-20T11:08:59,612     raise CommandError("Failed to build one or more wheels")
2022-05-20T11:08:59,612 pip._internal.exceptions.CommandError: Failed to build one or more wheels
2022-05-20T11:08:59,620 Removed build tracker: '/tmp/pip-build-tracker-vojjn97k'