Executables in CoCalc (Ubuntu 20.04)

Terminal showing listing executables in CoCalc

This is a non-comprehensive list of executables available on CoCalc.

To run anything listed below, you need to either open a "Terminal" or run the command indirectly via a Jupyter notebook.

On CoCalc, you can also install or compile your own executable binaries. You have a lot of control about your own project, which is a containerized environment based on x86_64 Ubuntu Linux 20.04.

Showing 299 executables

Path	Information
`/usr/bin/4ti2-zsolve`	------------------------------------------------- 4ti2 version 1.6.9 Copyright 1998, 2002, 2006, 2015 4ti2 team. 4ti2 comes with ABSOLUTELY NO WARRANTY. This is free software, and you are welcome to redistribute it under certain conditions. For details, see the file COPYING. -------------------------------------------------
`/usr/bin/7z`	7-Zip [64] 16.02 : Copyright (c) 1999-2016 Igor Pavlov : 2016-05-21 p7zip Version 16.02 (locale=C.UTF-8,Utf16=on,HugeFiles=on,64 bits,8 CPUs Intel(R) Xeon(R) CPU @ 2.80GHz (50657),ASM,AES-NI) Usage: 7z <command> [<switches>...] <archive_name> [<file_names>...] [<@listfiles...>] <Commands> a : Add files to archive b : Benchmark d : Delete files from archive e : Extract files from archive (without using directory names) h : Calculate hash values for files i : Show information about supported formats l : List contents of archive rn : Rename files in archive t : Test integrity of archive u : Update files to archive x : eXtract files with full paths <Switches> -- : Stop switches parsing -ai[r[-\|0]]{@listfile\|!wildcard} : Include archives -ax[r[-\|0]]{@listfile\|!wildcard} : eXclude archives -ao{a\|s\|t\|u} : set Overwrite mode -an : disable archive_name field -bb[0-3] : set output log level -bd : disable progress indicator -bs{o\|e\|p}{0\|1\|2} : set output stream for output/error/progress line -bt : show execution time statistics -i[r[-\|0]]{@listfile\|!wildcard} : Include filenames -m{Parameters} : set compression Method -mmt[N] : set number of CPU threads -o{Directory} : set Output directory -p{Password} : set Password -r[-\|0] : Recurse subdirectories -sa{a\|e\|s} : set Archive name mode -scc{UTF-8\|WIN\|DOS} : set charset for for console input/output -scs{UTF-8\|UTF-16LE\|UTF-16BE\|WIN\|DOS\|{id}} : set charset for list files -scrc[CRC32\|CRC64\|SHA1\|SHA256\|*] : set hash function for x, e, h commands -sdel : delete files after compression -seml[.] : send archive by email -sfx[{name}] : Create SFX archive -si[{name}] : read data from stdin -slp : set Large Pages mode -slt : show technical information for l (List) command -snh : store hard links as links -snl : store symbolic links as links -sni : store NT security information -sns[-] : store NTFS alternate streams -so : write data to stdout -spd : disable wildcard matching for file names -spe : eliminate duplication of root folder for extract command -spf : use fully qualified file paths -ssc[-] : set sensitive case mode -ssw : compress shared files -stl : set archive timestamp from the most recently modified file -stm{HexMask} : set CPU thread affinity mask (hexadecimal number) -stx{Type} : exclude archive type -t{Type} : Set type of archive -u[-][p#][q#][r#][x#][y#][z#][!newArchiveName] : Update options -v{Size}[b\|k\|m\|g] : Create volumes -w[{path}] : assign Work directory. Empty path means a temporary directory -x[r[-\|0]]{@listfile\|!wildcard} : eXclude filenames -y : assume Yes on all queries
`/usr/bin/advpng`	advancecomp vnone by Andrea Mazzoleni, http://www.advancemame.it
`/usr/bin/ag`	ag version 2.2.0 Features: +jit +lzma +zlib
`/usr/bin/ant`	Picked up _JAVA_OPTIONS: -Xms64m Apache Ant(TM) version 1.10.7 compiled on October 24 2019
`/usr/bin/asciidoc`	asciidoc 9.0.0rc1
`/usr/bin/asciidoctor`	Asciidoctor 2.0.10 [https://asciidoctor.org] Runtime Environment (ruby 2.7.0p0 (2019-12-25 revision 647ee6f091) [x86_64-linux-gnu]) (lc:UTF-8 fs:UTF-8 in:UTF-8 ex:UTF-8)
`/usr/bin/aspell`	@(#) International Ispell Version 3.1.20 (but really Aspell 0.60.8)
`/usr/bin/asy`	Asymptote version 2.62 [(C) 2004 Andy Hammerlindl, John C. Bowman, Tom Prince] ENABLED OPTIONS: WebGL 3D HTML rendering OpenGL 3D OpenGL rendering GSL GNU Scientific Library (special functions) FFTW3 Fast Fourier transforms XDR external data representation (portable binary file format) Readline interactive history and editing Sigsegv distinguish stack overflows from segmentation faults GC Boehm garbage collector DISABLED OPTIONS:
`/usr/bin/autoconf`	autoconf (GNU Autoconf) 2.69 Copyright (C) 2012 Free Software Foundation, Inc. License GPLv3+/Autoconf: GNU GPL version 3 or later <http://gnu.org/licenses/gpl.html>, <http://gnu.org/licenses/exceptions.html> This is free software: you are free to change and redistribute it. There is NO WARRANTY, to the extent permitted by law. Written by David J. MacKenzie and Akim Demaille.
`/usr/bin/automake`	automake (GNU automake) 1.16.1 Copyright (C) 2018 Free Software Foundation, Inc. License GPLv2+: GNU GPL version 2 or later <https://gnu.org/licenses/gpl-2.0.html> This is free software: you are free to change and redistribute it. There is NO WARRANTY, to the extent permitted by law. Written by Tom Tromey <[email protected]> and Alexandre Duret-Lutz <[email protected]>.
`/usr/local/bin/autopep8`	autopep8 2.0.2 (pycodestyle: 2.10.0)
`/usr/bin/bash`	GNU bash, version 5.0.17(1)-release (x86_64-pc-linux-gnu) Copyright (C) 2019 Free Software Foundation, Inc. License GPLv3+: GNU GPL version 3 or later <http://gnu.org/licenses/gpl.html> This is free software; you are free to change and redistribute it. There is NO WARRANTY, to the extent permitted by law.
`/usr/bin/bazel`	bazel 6.1.1
`/ext/bin/bedtools`	bedtools v2.30.0
`/usr/bin/biber`	biber version: 2.14 (beta)
`/usr/bin/bibtex`	BibTeX 0.99d (TeX Live 2019/Debian) kpathsea version 6.3.1 Copyright 2019 Oren Patashnik. There is NO warranty. Redistribution of this software is covered by the terms of both the BibTeX copyright and the Lesser GNU General Public License. For more information about these matters, see the file named COPYING and the BibTeX source. Primary author of BibTeX: Oren Patashnik.
`/usr/local/bin/black`	black, 23.1.0 (compiled: yes) Python (CPython) 3.8.10
`/ext/bin/bliss`	bliss version 0.77
`/opt/ghc/bin/cabal`	cabal-install version 3.2.0.0 compiled using version 3.2.0.0 of the Cabal library
`/usr/local/bin/cadabra2`	Info at http://cadabra.science/ Available under the terms of the GNU General Public License v3 Cadabra 2.3.1 (build 1.a496d46 dated 2020-07-18) Copyright (C) 2001-2020 Kasper Peeters <[email protected]> Using SymPy version 1.6.2 > > now exiting Shell...
`/usr/bin/cal`	March 2023 Su Mo Tu We Th Fr Sa 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30 _3_1
`/ext/bin/cargo`	cargo 1.68.1 (115f34552 2023-02-26)
`/usr/bin/cbc`	Welcome to the CBC MILP Solver Version: 2.10.3 Build Date: Mar 24 2020 command line - cbc -help (default strategy 1) Cbc version 2.10.3, build Mar 24 2020 Non default values:- Perturbation 50 (default 100) Presolve being done with 5 passes Dual steepest edge steep/partial on matrix shape and factorization density Clpnnnn taken out of messages If Factorization frequency default then done on size of matrix (-)unitTest, (-)netlib or (-)netlibp will do standard tests You can switch to interactive mode at any time so clp watson.mps -scaling off -primalsimplex is the same as clp watson.mps - scaling off primalsimplex Total time (CPU seconds): 0.00 (Wallclock seconds): 0.00
`/usr/bin/ccache`	ccache version 3.7.7 Copyright (C) 2002-2007 Andrew Tridgell Copyright (C) 2009-2020 Joel Rosdahl This program is free software; you can redistribute it and/or modify it under the terms of the GNU General Public License as published by the Free Software Foundation; either version 3 of the License, or (at your option) any later version.
`/usr/bin/ccmake`	ccmake version 3.26.1 CMake suite maintained and supported by Kitware (kitware.com/cmake).
`/ext/bin/cdo`	Climate Data Operators version 1.9.8 (https://mpimet.mpg.de/cdo) System: x86_64-conda_cos6-linux-gnu CXX Compiler: /home/conda/feedstock_root/build_artifacts/cdo_1590605604465/_build_env/bin/x86_64-conda_cos6-linux-gnu-c++ -fPIC -DPIC -g -O2 -std=c++11 -fopenmp -DACCEPT_USE_OF_DEPRECATED_PROJ_API_H=1 -march=nocona -mtune=haswell -ftree-vectorize -fPIC -fstack-protector-strong -fno-plt -O2 -ffunction-sections -pipe -isystem /ext/anaconda2020.02/include -fdebug-prefix-map=/home/conda/feedstock_root/build_artifacts/cdo_1590605604465/work=/usr/local/src/conda/cdo-1.9.8 -fdebug-prefix-map=/ext/anaconda2020.02=/usr/local/src/conda-prefix -fopenmp CXX version : unknown C Compiler: /home/conda/feedstock_root/build_artifacts/cdo_1590605604465/_build_env/bin/x86_64-conda_cos6-linux-gnu-cc -DACCEPT_USE_OF_DEPRECATED_PROJ_API_H=1 -march=nocona -mtune=haswell -ftree-vectorize -fPIC -fstack-protector-strong -fno-plt -O2 -ffunction-sections -pipe -isystem /ext/anaconda2020.02/include -fdebug-prefix-map=/home/conda/feedstock_root/build_artifacts/cdo_1590605604465/work=/usr/local/src/conda/cdo-1.9.8 -fdebug-prefix-map=/ext/anaconda2020.02=/usr/local/src/conda-prefix -fopenmp C version : unknown F77 Compiler: /home/conda/feedstock_root/build_artifacts/cdo_1590605604465/_build_env/bin/x86_64-conda_cos6-linux-gnu-gfortran -fopenmp -march=nocona -mtune=haswell -ftree-vectorize -fPIC -fstack-protector-strong -fno-plt -O2 -ffunction-sections -pipe -isystem /ext/anaconda2020.02/include -fdebug-prefix-map=/home/conda/feedstock_root/build_artifacts/cdo_1590605604465/work=/usr/local/src/conda/cdo-1.9.8 -fdebug-prefix-map=/ext/anaconda2020.02=/usr/local/src/conda-prefix F77 version : unknown Features: 62GB 8threads C++11 Fortran DATA PTHREADS OpenMP HDF5 NC4/HDF5/threadsafe OPeNDAP UDUNITS2 PROJ XML2 CURL FFTW3 SSE3 Libraries: HDF5/1.10.6 proj/7.0.0 xml2/2.9.10 curl/7.76.1(h7.69.1) Filetypes: srv ext ieg grb1 grb2 nc1 nc2 nc4 nc4c nc5 CDI library version : 1.9.8 cgribex library version : 1.9.4 ecCodes library version : 2.19.1 NetCDF library version : 4.7.4 of Dec 14 2020 16:15:57 $ hdf5 library version : 1.10.6 threadsafe exse library version : 1.4.1 FILE library version : 1.8.3
`/usr/bin/chafa`	Chafa version 1.2.1 Features: mmx sse4.1 popcnt Applying: mmx sse4.1 popcnt Copyright (C) 2018 Hans Petter Jansson et al. Incl. libnsgif copyright (C) 2004 Richard Wilson, copyright (C) 2008 Sean Fox This is free software; see the source for copying conditions. There is NO warranty; not even for MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.
`/usr/bin/cheetah3`	3.2.4
`/usr/bin/chromedriver`	ChromeDriver 111.0.5563.64 (c710e93d5b63b7095afe8c2c17df34408078439d-refs/branch-heads/5563@{#995})
`/usr/bin/clang`	clang version 10.0.0-4ubuntu1 Target: x86_64-pc-linux-gnu Thread model: posix InstalledDir: /usr/bin
`/usr/bin/clang-format`	clang-format version 10.0.0-4ubuntu1
`/usr/bin/clasp`	clasp version 3.3.4 Address model: 64-bit libclasp version 3.3.4 (libpotassco version 1.1.0) Configuration: WITH_THREADS=1 Copyright (C) Benjamin Kaufmann License: The MIT License <https://opensource.org/licenses/MIT>
`/usr/bin/clojure`	Picked up _JAVA_OPTIONS: -Xms64m "1.10.1"
`/usr/bin/clp`	Coin LP version 1.17.5, build Feb 17 2020 command line - clp -help No match for help - ? for list of commands Clp takes input from arguments ( - switches to stdin) Enter ? for list of commands or help Clp:
`/usr/local/bin/cmake`	cmake version 3.26.1 CMake suite maintained and supported by Kitware (kitware.com/cmake).
`/usr/bin/code`	Visual Studio Code 1.76.2 Usage: code [options][paths...] To read from stdin, append '-' (e.g. 'ps aux \| grep code \| code -') Options -d --diff <file> <file> Compare two files with each other. -m --merge <path1> <path2> <base> <result> Perform a three-way merge by providing paths for two modified versions of a file, the common origin of both modified versions and the output file to save merge results. -a --add <folder> Add folder(s) to the last active window. -g --goto <file:line[:character]> Open a file at the path on the specified line and character position. -n --new-window Force to open a new window. -r --reuse-window Force to open a file or folder in an already opened window. -w --wait Wait for the files to be closed before returning. --locale <locale> The locale to use (e.g. en-US or zh-TW). --user-data-dir <dir> Specifies the directory that user data is kept in. Can be used to open multiple distinct instances of Code. --profile <profileName> Opens the provided folder or workspace with the given profile and associates the profile with the workspace. If the profile does not exist, a new empty one is created. A folder or workspace must be provided for the profile to take effect. -h --help Print usage. Extensions Management --extensions-dir <dir> Set the root path for extensions. --list-extensions List the installed extensions. --show-versions Show versions of installed extensions, when using --list-extensions. --category <category> Filters installed extensions by provided category, when using --list-extensions. --install-extension <ext-id \| path> Installs or updates an extension. The argument is either an extension id or a path to a VSIX. The identifier of an extension is '${publisher}.${name}'. Use '--force' argument to update to latest version. To install a specific version provide '@${version}'. For example: '[email protected]'. --pre-release Installs the pre-release version of the extension, when using --install-extension --uninstall-extension <ext-id> Uninstalls an extension. --enable-proposed-api <ext-id> Enables proposed API features for extensions. Can receive one or more extension IDs to enable individually. Troubleshooting -v --version Print version. --verbose Print verbose output (implies --wait). --log <level> Log level to use. Default is 'info'. Allowed values are 'critical', 'error', 'warn', 'info', 'debug', 'trace', 'off'. You can also configure the log level of an extension by passing extension id and log level in the following format: '${publisher}.${name}:${logLevel}'. For example: 'vscode.csharp:trace'. Can receive one or more such entries. -s --status Print process usage and diagnostics information. --prof-startup Run CPU profiler during startup. --disable-extensions Disable all installed extensions. This option is not persisted and is effective only when the command opens a new window. --disable-extension <ext-id> Disable the provided extension. This option is not persisted and is effective only when the command opens a new window. --sync <on \| off> Turn sync on or off. --inspect-extensions <port> Allow debugging and profiling of extensions. Check the developer tools for the connection URI. --inspect-brk-extensions <port> Allow debugging and profiling of extensions with the extension host being paused after start. Check the developer tools for the connection URI. --disable-gpu Disable GPU hardware acceleration. --max-memory <memory> Max memory size for a window (in Mbytes). --telemetry Shows all telemetry events which VS code collects. Subcommands tunnel Make the current machine accessible from vscode.dev or other machines through a secure tunnel
`/usr/bin/code-server`	4.10.1 d477972c68fc8c8e8d610aa7287db87ba90e55c7 with Code 1.75.1
`/usr/bin/coffee`	CoffeeScript version 2.7.0
`/ext/data/homer/configureHomer.pl`	Current base directory for HOMER is /ext/data/homer/ /ext/data/homer//update.txt: Read-only file system Updating Settings... Packages with name conflicts have a trailing -o, -p, or -g Version Installed Package Version Description SOFTWARE v4.9.1 homer v4.11.1 Code/Executables, ontologies, motifs for HOMER ORGANISMS v5.10 human-o v6.3 Homo sapiens (human) accession and ontology information - zebrafish-o v6.3 Danio rerio (zebrafish) accession and ontology information - arabidopsis-o v6.3 Arabidopsis thaliana (arabidopsis) accession and ontology information - ncrassa v6.3 Neurospora crassa (ncrassa) accession and ontology information - chlamy v6.3 Chlamydomonas reinhardtii (chlamy) accession and ontology information - laevis v6.3 Xenopus laevis (laevis) accession and ontology information - lamprey v6.3 Petromyzon marinus (lamprey) accession and ontology information - mosquito v6.3 Anopheles gambiae (mosquito) accession and ontology information - urchin v6.3 Strongylocentrotus purpuratus (urchin) accession and ontology information - selaginella v6.3 Selaginella moellendorffii (selaginella) accession and ontology information - pig v6.3 Sus scrofa (pig) accession and ontology information - cocci v6.3 Coccidioides immitis RS (cocci) accession and ontology information - ciona v6.3 Ciona intestinalis (ciona) accession and ontology information - yeast-o v6.3 Saccharomyces cerevisiae (yeast) accession and ontology information - ascomycetes v6.0 Neurospora crassa (ascomycetes) accession and ontology information - dicty v6.3 Dictyostelium discoideum (dicty) accession and ontology information - fugu v6.3 Takifugu rubripes (fugu) accession and ontology information - zebrafinch v6.3 Taeniopygia guttata (zebrafinch) accession and ontology information - tomato v6.3 Solanum lycopersicum (tomato) accession and ontology information - mouse-o v6.3 Mus musculus (mouse) accession and ontology information - mushroom v6.3 Agaricus bisporus (mushroom) accession and ontology information - rhesus v6.3 Macaca mulatta (rhesus) accession and ontology information - seahare v6.3 Aplysia californica (seahare) accession and ontology information - worm-o v6.3 Caenorhabditis elegans (worm) accession and ontology information - dog v6.3 Canis lupus familiaris (dog) accession and ontology information - diatom v6.3 Phaeodactylum tricornutum (diatom) accession and ontology information - rice v6.3 Oryza sativa (rice) accession and ontology information - rat-o v6.3 Rattus norvegicus (rat) accession and ontology information - corn v6.3 Zea mays (corn) accession and ontology information - pombe v6.3 Schizosaccharomyces pombe (pombe) accession and ontology information - volvox v6.3 Volvox carteri (volvox) accession and ontology information - hydra v6.3 Hydra vulgaris (hydra) accession and ontology information - fly-o v6.3 Drosophila melanogaster (fly) accession and ontology information - patens v6.3 Physcomitrella patens (patens) accession and ontology information - anemone v6.3 Nematostella vectensis (anemone) accession and ontology information - balbc_cocci v5.2 Balbc/J mouse and Coccidioides genome combined - ciliate v6.3 Tetrahymena thermophila (ciliate) accession and ontology information - frog-o v6.3 Xenopus tropicalis (frog) accession and ontology information - cow v5.4 Bos taurus (cow) accession and ontology information - pseudonana v6.3 Thalassiosira pseudonana (pseudonana) accession and ontology information - chicken-o v6.3 Gallus gallus (chicken) accession and ontology information - bee v6.3 Apis mellifera (bee) accession and ontology information PROMOTERS - mouse-p v5.5 mouse promoters (mouse) - fly-p v5.5 fly promoters (fly) - chicken-p v5.5 chicken promoters (chicken) - worm-p v5.5 worm promoters (worm) - frog-p v5.5 frog promoters (frog) - yeast-p v5.5 yeast promoters (yeast) - zebrafish-p v5.5 zebrafish promoters (zebrafish) - arabidopsis-p v6.3 arabidopsis promoters (arabidopsis) - human-p v5.5 human promoters (human) - rat-p v5.5 rat promoters (rat) GENOMES v5.10 hg18 v6.4 human genome and annotation for UCSC hg18 - panTro4 v6.4 human genome and annotation for UCSC panTro4 - gorGor4 v6.4 human genome and annotation for UCSC gorGor4 - danRer10 v6.4 zebrafish genome and annotation for UCSC danRer10 - rn5 v6.4 rat genome and annotation for UCSC rn5 - canFam3 v6.4 dog genome and annotation for UCSC canFam3 - danRer7 v6.4 zebrafish genome and annotation for UCSC danRer7 - patens.ASM242v1 v5.10 patens genome and annotation (patens.ASM242v1) - rheMac8 v6.4 rhesus genome and annotation for UCSC rheMac8 - danRer11 v6.4 zebrafish genome and annotation for UCSC danRer11 - tair10 v6.0 arabidopsis genome and annotation (tair10) - corn.AGPv3 v5.10 corn genome and annotation (corn.AGPv3) - papAnu2 v6.4 human genome and annotation for UCSC papAnu2 - hg38 v6.4 human genome and annotation for UCSC hg38 - hg17 v6.4 human genome and annotation for UCSC hg17 - galGal4 v6.4 chicken genome and annotation for UCSC galGal4 - panPan2 v6.4 human genome and annotation for UCSC panPan2 - fr3 v6.4 fugu genome and annotation for UCSC fr3 - apiMel3 v6.4 bee genome and annotation for UCSC apiMel3 - rice.IRGSP-1.0 v5.10 rice genome and annotation (rice.IRGSP-1.0) - ci3 v6.4 ciona genome and annotation for UCSC ci3 - panPan1 v6.4 human genome and annotation for UCSC panPan1 - galGal6 v6.4 chicken genome and annotation for UCSC galGal6 - gorGor5 v6.4 human genome and annotation for UCSC gorGor5 - strPur2 v6.0 urchin genome and annotation for UCSC strPur2 - panTro5 v6.4 human genome and annotation for UCSC panTro5 - mm10 v6.4 mouse genome and annotation for UCSC mm10 - xenTro2 v6.4 frog genome and annotation for UCSC xenTro2 - mm8 v6.4 mouse genome and annotation for UCSC mm8 - rheMac2 v6.4 rhesus genome and annotation for UCSC rheMac2 - petMar3 v6.4 lamprey genome and annotation for UCSC petMar3 - dm6 v6.4 fly genome and annotation for UCSC dm6 - sacCer2 v6.4 yeast genome and annotation for UCSC sacCer2 - panTro3 v6.4 human genome and annotation for UCSC panTro3 - xenTro7 v6.4 frog genome and annotation for UCSC xenTro7 - hg19 v6.4 human genome and annotation for UCSC hg19 - gorGor3 v6.4 human genome and annotation for UCSC gorGor3 - tetNig2 v6.4 fugu genome and annotation for UCSC tetNig2 - mm9 v6.4 mouse genome and annotation for UCSC mm9 - anoGam1 v6.4 mosquito genome and annotation for UCSC anoGam1 - sacCer3 v6.4 yeast genome and annotation for UCSC sacCer3 - rn4 v6.4 rat genome and annotation for UCSC rn4 - rheMac3 v6.4 rhesus genome and annotation for UCSC rheMac3 - ce6 v6.4 worm genome and annotation for UCSC ce6 - xenTro3 v6.4 frog genome and annotation for UCSC xenTro3 - xenTro9 v6.4 frog genome and annotation for UCSC xenTro9 - dm3 v6.0 fly genome and annotation for UCSC dm3 - petMar2 v6.4 lamprey genome and annotation for UCSC petMar2 - taeGut2 v6.4 zebrafinch genome and annotation for UCSC taeGut2 - rn6 v6.4 rat genome and annotation for UCSC rn6 - aplCal1 v6.4 seahare genome and annotation for UCSC aplCal1 - ci2 v6.4 ciona genome and annotation for UCSC ci2 - susScr11 v6.4 pig genome and annotation for UCSC susScr11 - panTro6 v6.4 human genome and annotation for UCSC panTro6 - apiMel2 v6.4 bee genome and annotation for UCSC apiMel2 - ce11 v6.4 worm genome and annotation for UCSC ce11 - galGal5 v6.4 chicken genome and annotation for UCSC galGal5 - susScr3 v6.4 pig genome and annotation for UCSC susScr3 - ce10 v6.4 worm genome and annotation for UCSC ce10 - AGPv3 v5.10 corn genome and annotation (AGPv3) SETTINGS
`/usr/bin/convert`	Version: ImageMagick 6.9.10-23 Q16 x86_64 20190101 https://imagemagick.org Copyright: © 1999-2019 ImageMagick Studio LLC License: https://imagemagick.org/script/license.php Features: Cipher DPC Modules OpenMP Delegates (built-in): bzlib djvu fftw fontconfig freetype jbig jng jpeg lcms lqr ltdl lzma openexr pangocairo png tiff webp wmf x xml zlib
`/usr/bin/coqc`	The Coq Proof Assistant, version 8.11.0 (March 2020) compiled on Mar 5 2020 20:37:30 with OCaml 4.08.1
`/usr/bin/cpp`	cpp (Ubuntu 9.4.0-1ubuntu1~20.04.1) 9.4.0 Copyright (C) 2019 Free Software Foundation, Inc. This is free software; see the source for copying conditions. There is NO warranty; not even for MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.
`/usr/bin/cpulimit`	CPUlimit version 2.4 Usage: cpulimit TARGET [OPTIONS...] [-- PROGRAM] TARGET must be exactly one of these: -p, --pid=N pid of the process -e, --exe=FILE name of the executable program file The -e option only works when cpulimit is run with admin rights. -P, --path=PATH absolute path name of the executable program file OPTIONS -b --background run in background -f --foreground launch target process in foreground and wait for it to exit -c --cpu=N override the detection of CPUs on the machine. -l, --limit=N percentage of cpu allowed from 1 up. Usually 1 - 800, but can be higher on multi-core CPUs (mandatory) -m, --monitor-forks Watch children/forks of the target process -q, --quiet run in quiet mode (only print errors). -k, --kill kill processes going over their limit instead of just throttling them. -r, --restore Restore processes after they have been killed. Works with the -k flag. -s, --signal=SIG Send this signal to the watched process when cpulimit exits. Signal should be specificed as a number or SIGTERM, SIGCONT, SIGSTOP, etc. SIGCONT is the default. -v, --verbose show control statistics -z, --lazy exit if there is no suitable target process, or if it dies -- This is the final CPUlimit option. All following options are for another program we will launch. -h, --help display this help and exit
`/usr/bin/csdp`	CSDP 6.2.0 Usage: csdp <input problem> [<final solution>] [<initial solution>]
`/usr/bin/cvs`	Concurrent Versions System (CVS) 1.12.13-MirDebian-27 (client/server) Copyright (C) 2005 Free Software Foundation, Inc. Portions contributed by Thorsten Glaser for the MirOS Project and Debian. Senior active maintainers include Larry Jones, Derek R. Price, and Mark D. Baushke. Please see the AUTHORS and README files from the CVS distribution kit for a complete list of contributors and copyrights. CVS may be copied only under the terms of the GNU General Public License, a copy of which can be found with the CVS distribution kit. Specify the --help option for further information about CVS
`/usr/local/bin/cython`	Cython version 0.29.26
`/usr/bin/data`	0.10.1
`/usr/bin/dbar`	usage: dbar [-w <characters>] [-s <symbol>] [-min <minvalue>] [-max <maxvalue>] [-l <string>] [-nonl]
`/usr/bin/diff3`	diff3 (GNU diffutils) 3.7 Copyright (C) 2018 Free Software Foundation, Inc. License GPLv3+: GNU GPL version 3 or later <https://gnu.org/licenses/gpl.html>. This is free software: you are free to change and redistribute it. There is NO WARRANTY, to the extent permitted by law. Written by Randy Smith.
`/usr/bin/docbook2pdf`	DocBook-utils version 0.6.14 (jw version 1.1)
`/usr/local/bin/docx2txt`	usage: docx2txt [-h] [-i IMG_DIR] docx A pure python-based utility to extract text and images from docx files. positional arguments: docx path of the docx file optional arguments: -h, --help show this help message and exit -i IMG_DIR, --img_dir IMG_DIR path of directory to extract images
`/usr/bin/dot`	dot - graphviz version 2.43.0 (0)
`/usr/bin/dotty`	dotty version 96c (09-24-96) Error: Can't open display:
`/usr/bin/dvips`	This is dvips(k) 5.999 Copyright 2019 Radical Eye Software kpathsea version 6.3.1 Copyright 2019 Radical Eye Software. There is NO warranty. You may redistribute this software under the terms of the GNU General Public License and the Dvips copyright. For more information about these matters, see the files named COPYING and dvips.h. Primary author of Dvips: T. Rokicki.
`/usr/bin/ed`	GNU ed 1.16 Copyright (C) 1994 Andrew L. Moore. Copyright (C) 2020 Antonio Diaz Diaz. License GPLv3+: GNU GPL version 3 or later <http://gnu.org/licenses/gpl.html> This is free software: you are free to change and redistribute it. There is NO WARRANTY, to the extent permitted by law.
`/usr/bin/emacs`	GNU Emacs 26.3 Copyright (C) 2019 Free Software Foundation, Inc. GNU Emacs comes with ABSOLUTELY NO WARRANTY. You may redistribute copies of GNU Emacs under the terms of the GNU General Public License. For more information about these matters, see the file named COPYING.
`/usr/bin/encfs`	encfs version 1.9.5
`/usr/bin/erb`	erb.rb [2.2.0 $]
`/usr/bin/erl`	Erlang (SMP,ASYNC_THREADS) (BEAM) emulator version 10.6.4
`/usr/local/bin/f2py`	1.22.4
`/usr/bin/f77`	GNU Fortran (Ubuntu 9.4.0-1ubuntu1~20.04.1) 9.4.0 Copyright (C) 2019 Free Software Foundation, Inc. This is free software; see the source for copying conditions. There is NO warranty; not even for MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.
`/usr/bin/f95`	GNU Fortran (Ubuntu 9.4.0-1ubuntu1~20.04.1) 9.4.0 Copyright (C) 2019 Free Software Foundation, Inc. This is free software; see the source for copying conditions. There is NO warranty; not even for MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.
`/usr/bin/fastp`	fastp 0.20.0
`/usr/bin/fastqc`	Picked up _JAVA_OPTIONS: -Xms64m FastQC v0.11.9
`/usr/bin/fenics-version`	2019.2.0.dev0
`/usr/bin/feynmf`	This is feynmf: $Id: feynmf.pl,v 1.5 1996/12/02 01:38:45 ohl Exp $
`/usr/bin/ffmpeg`	ffmpeg version 4.2.7-0ubuntu0.1 Copyright (c) 2000-2022 the FFmpeg developers built with gcc 9 (Ubuntu 9.4.0-1ubuntu1~20.04.1) configuration: --prefix=/usr --extra-version=0ubuntu0.1 --toolchain=hardened --libdir=/usr/lib/x86_64-linux-gnu --incdir=/usr/include/x86_64-linux-gnu --arch=amd64 --enable-gpl --disable-stripping --enable-avresample --disable-filter=resample --enable-avisynth --enable-gnutls --enable-ladspa --enable-libaom --enable-libass --enable-libbluray --enable-libbs2b --enable-libcaca --enable-libcdio --enable-libcodec2 --enable-libflite --enable-libfontconfig --enable-libfreetype --enable-libfribidi --enable-libgme --enable-libgsm --enable-libjack --enable-libmp3lame --enable-libmysofa --enable-libopenjpeg --enable-libopenmpt --enable-libopus --enable-libpulse --enable-librsvg --enable-librubberband --enable-libshine --enable-libsnappy --enable-libsoxr --enable-libspeex --enable-libssh --enable-libtheora --enable-libtwolame --enable-libvidstab --enable-libvorbis --enable-libvpx --enable-libwavpack --enable-libwebp --enable-libx265 --enable-libxml2 --enable-libxvid --enable-libzmq --enable-libzvbi --enable-lv2 --enable-omx --enable-openal --enable-opencl --enable-opengl --enable-sdl2 --enable-libdc1394 --enable-libdrm --enable-libiec61883 --enable-nvenc --enable-chromaprint --enable-frei0r --enable-libx264 --enable-shared WARNING: library configuration mismatch avcodec configuration: --prefix=/usr --extra-version=0ubuntu0.1 --toolchain=hardened --libdir=/usr/lib/x86_64-linux-gnu --incdir=/usr/include/x86_64-linux-gnu --arch=amd64 --enable-gpl --disable-stripping --enable-avresample --disable-filter=resample --enable-avisynth --enable-gnutls --enable-ladspa --enable-libaom --enable-libass --enable-libbluray --enable-libbs2b --enable-libcaca --enable-libcdio --enable-libcodec2 --enable-libflite --enable-libfontconfig --enable-libfreetype --enable-libfribidi --enable-libgme --enable-libgsm --enable-libjack --enable-libmp3lame --enable-libmysofa --enable-libopenjpeg --enable-libopenmpt --enable-libopus --enable-libpulse --enable-librsvg --enable-librubberband --enable-libshine --enable-libsnappy --enable-libsoxr --enable-libspeex --enable-libssh --enable-libtheora --enable-libtwolame --enable-libvidstab --enable-libvorbis --enable-libvpx --enable-libwavpack --enable-libwebp --enable-libx265 --enable-libxml2 --enable-libxvid --enable-libzmq --enable-libzvbi --enable-lv2 --enable-omx --enable-openal --enable-opencl --enable-opengl --enable-sdl2 --enable-libdc1394 --enable-libdrm --enable-libiec61883 --enable-nvenc --enable-chromaprint --enable-frei0r --enable-libx264 --enable-shared --enable-version3 --disable-doc --disable-programs --enable-libaribb24 --enable-liblensfun --enable-libopencore_amrnb --enable-libopencore_amrwb --enable-libtesseract --enable-libvo_amrwbenc libavutil 56. 31.100 / 56. 31.100 libavcodec 58. 54.100 / 58. 54.100 libavformat 58. 29.100 / 58. 29.100 libavdevice 58. 8.100 / 58. 8.100 libavfilter 7. 57.100 / 7. 57.100 libavresample 4. 0. 0 / 4. 0. 0 libswscale 5. 5.100 / 5. 5.100 libswresample 3. 5.100 / 3. 5.100 libpostproc 55. 5.100 / 55. 5.100 Unrecognized option '-version'. Error splitting the argument list: Option not found
`/usr/bin/firefox`	Mozilla Firefox 111.0.1
`/usr/bin/fish`	fish, version 3.1.0
`/usr/bin/flex`	flex 2.6.4
`/ext/bin/fscip`	syntax: fscip fscip_param_file problem_file_name [-l <logfile>] [-q] [-sl <settings>] [-s <settings>] [-sr <root_settings>] [-w <prefix_warm>] [-sth <number>] [-fsol <solution_file>] [-isol <initial solution file] -l <logfile> : copy output into log file -q : suppress screen messages -sl <settings> : load parameter settings (.set) file for LC presolving -s <settings> : load parameter settings (.set) file for solvers -sr <root_settings> : load parameter settings (.set) file for root -w <prefix_warm> : warm start file prefix ( prefix_warm_nodes.gz and prefix_warm_solution.txt are read ) -sth <number> : the number of solver threads used -fsol <solution file> : specify output solution file -isol <intial solution file> : specify initial solution file
`/usr/bin/g++`	g++ (Ubuntu 9.4.0-1ubuntu1~20.04.1) 9.4.0 Copyright (C) 2019 Free Software Foundation, Inc. This is free software; see the source for copying conditions. There is NO warranty; not even for MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.
`/usr/bin/g++-10`	g++-10 (Ubuntu 10.3.0-1ubuntu1~20.04) 10.3.0 Copyright (C) 2020 Free Software Foundation, Inc. This is free software; see the source for copying conditions. There is NO warranty; not even for MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.
`/ext/bin/gap`	┌───────┐ GAP 4.11.0 of 29-Feb-2020 │ GAP │ https://www.gap-system.org └───────┘ Architecture: x86_64-pc-linux-gnu-default64-kv7 Configuration: gmp 6.2.0, GASMAN, readline Loading the library and packages ... Packages: AClib 1.3.2, Alnuth 3.1.2, AtlasRep 2.1.0, AutoDoc 2019.09.04, AutPGrp 1.10.2, Browse 1.8.8, CaratInterface 2.3.3, CRISP 1.4.5, Cryst 4.1.23, CrystCat 1.1.9, CTblLib 1.2.2, FactInt 1.6.3, FGA 1.4.0, Forms 1.2.5, GAPDoc 1.6.3, genss 1.6.6, IO 4.7.0, IRREDSOL 1.4, LAGUNA 3.9.3, orb 4.8.3, Polenta 1.3.9, Polycyclic 2.15.1, PrimGrp 3.4.0, RadiRoot 2.8, recog 1.3.2, ResClasses 4.7.2, SmallGrp 1.4.1, Sophus 1.24, SpinSym 1.5.2, TomLib 1.2.9, TransGrp 2.0.5, utils 0.69 Try '??help' for help. See also '?copyright', '?cite' and '?authors' gap>
`/usr/local/bin/gap-sage`	┌───────┐ GAP 4.11.1 of 2021-03-02 │ GAP │ https://www.gap-system.org └───────┘ Architecture: x86_64-pc-linux-gnu-default64-kv7 Configuration: gmp 6.2.0, GASMAN, readline Loading the library and packages ... Packages: AClib 1.3.2, Alnuth 3.1.2, AtlasRep 2.1.0, AutoDoc 2020.08.11, AutPGrp 1.10.2, CRISP 1.4.5, Cryst 4.1.23, CrystCat 1.1.9, CTblLib 1.3.1, FactInt 1.6.3, FGA 1.4.0, GAPDoc 1.6.4, IO 4.7.0, IRREDSOL 1.4.1, LAGUNA 3.9.3, Polenta 1.3.9, Polycyclic 2.16, PrimGrp 3.4.1, RadiRoot 2.8, ResClasses 4.7.2, SmallGrp 1.4.2, Sophus 1.24, TomLib 1.2.9, TransGrp 3.0, utils 0.69 Try '??help' for help. See also '?copyright', '?cite' and '?authors' gap>
`/ext/bin/gap3`	######## Lehrstuhl D fuer Mathematik, RWTH Aachen ### #### ####### ######### ## ## # ## ## # ## ## # # ## # ## ## # ## # # ## #### ## ######### ####### ##### ### Version 3 Release 4.4 18 Apr 97 # ######### # # Martin Schoenert ## Alice Niemeyer, Werner Nickel # Erzsebet Horvath ### Bettina Eick, Frank Celler, # Udo Polis ## # Johannes Meier, Alex Wegner, # Goetz Pfeiffer ## # Juergen Mnich, Thomas Breuer # Heiko Theissen ## # Hans U. Besche, Volkmar Felsch # Ansgar Kaup ## # Akos Seress, Alexander Hulpke, Thomas Bischops ## ## ###### For help enter: ?<return> lib: 29 May 2017, src: 22 feb 2017, sys: linux gcc64 for this GAP3 distribution see webusers.imj-prg.fr/~jmichel/gap3 --- Loading package arep -------- version 1.0 of 1998 Jul 22 ---------------- (C) Sebastian Egner, Markus Pueschel -- Abstract REPresentations --- Loading package guava ------- version 1.3 ------------------------------- (C) Jasper Cramwinckel, Erik Roijackers, Reinald Baart, Eric Minkes --- Loading package autag ------- version of 1997 Jan ----------------------- --- Loading package cryst ------- version of 1997 --------------------------- --- Loading package dce --------- version of 1995 --------------------------- --- Loading package gliss ------- version 1.0 of 1996 Sep 27 ---------------- (C) Christof Noebauer -- Glissando: small semigroups and near rings --- Loading package grim -------- version 1.0 ------------------------------- (C) [email protected] -- Groups of Rational and Integer Matrices --- Loading package matrix ------ version 1.0 ------------------------------- (C) Frank Celler, Derek Holt, Charles Leedham-Green, Alice Niemeyer Eamon O'Brien, Cheryl Praeger, Anthony Pye, Sarah Rees --- Loading package monoid ------ version 2.2 ------------------------------- --- Loading package xmod -------- version 1.3.1 of 1997 Jan ----------------- (C) Chris Wensley, Murat Alp -- Crossed-modules, Cat1-groups --- Loading package algebra ----- version of 2010 Oct ----------------------- (C) C'edric Bonnaf'e -- Finite dimensional algebras --- Loading package specht ------ version 3.1 - unofficial (development) ---- Decomposition numbers of Hecke algebras of type A and q-Schur algebras. (C) Andrew Mathas [email protected] Sydney --- Loading package chevie ------ version of 2017 Jun 30 -------------------- If you use CHEVIE in your work please cite the authors as follows: [Jean Michel] The development version of the CHEVIE package of GAP3 Journal of algebra 435 (2015) 308--336 [Meinolf Geck, Gerhard Hiss, Frank Luebeck, Gunter Malle, Goetz Pfeiffer] CHEVIE -- a system for computing and processing generic character tables Applicable Algebra in Engineering Comm. and Computing 7 (1996) 175--210 --- Loading package vkcurve ----- version 1.2 of 2009 Mar ------------------- (C) David Bessis, Jean Michel -- compute Pi_1 of hypersurface complements gap>
`/usr/bin/gcc`	gcc (Ubuntu 9.4.0-1ubuntu1~20.04.1) 9.4.0 Copyright (C) 2019 Free Software Foundation, Inc. This is free software; see the source for copying conditions. There is NO warranty; not even for MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.
`/usr/bin/gcc-10`	gcc-10 (Ubuntu 10.3.0-1ubuntu1~20.04) 10.3.0 Copyright (C) 2020 Free Software Foundation, Inc. This is free software; see the source for copying conditions. There is NO warranty; not even for MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.
`/usr/bin/gcc-9`	gcc-9 (Ubuntu 9.4.0-1ubuntu1~20.04.1) 9.4.0 Copyright (C) 2019 Free Software Foundation, Inc. This is free software; see the source for copying conditions. There is NO warranty; not even for MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.
`/usr/bin/geckodriver`	geckodriver 0.32.0 (4563dd583110 2022-10-13 09:22 +0000) The source code of this program is available from testing/geckodriver in https://hg.mozilla.org/mozilla-central. This program is subject to the terms of the Mozilla Public License 2.0. You can obtain a copy of the license at https://mozilla.org/MPL/2.0/.
`/usr/bin/gfortran`	GNU Fortran (Ubuntu 9.4.0-1ubuntu1~20.04.1) 9.4.0 Copyright (C) 2019 Free Software Foundation, Inc. This is free software; see the source for copying conditions. There is NO warranty; not even for MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.
`/usr/bin/gh`	gh version 2.25.0 (2023-03-20) https://github.com/cli/cli/releases/tag/v2.25.0
`/opt/ghc/bin/ghc`	The Glorious Glasgow Haskell Compilation System, version 8.10.2
`/ext/bin/giac`	// Maximum number of parallel threads 8 // (c) 2001, 2021 B. Parisse & others 1.9.0
`/usr/bin/git`	git version 2.25.1
`/usr/local/bin/git-trac`	usage: git-trac [-h] [--debug] [--log LOG] {create,checkout,search,fetch,pull,push,get,depends,print,browse,review,find,try,log,config,cheat-sheet,help} ... The trac command extension for git positional arguments: {create,checkout,search,fetch,pull,push,get,depends,print,browse,review,find,try,log,config,cheat-sheet,help} create Create new ticket checkout Download branch search Search trac fetch Fetch branch from trac ticket pull Get updates push Upload changes get Print trac page depends Print trac dependencies print Print trac page browse Open trac page in browser review Show code to review find Find trac ticket from SHA1 try Try out trac ticket in "detached HEAD" log Commit log for ticket config Configure git-trac cheat-sheet Show the git trac cheat sheet help Show the git trac help optional arguments: -h show this help message and exit --debug debug --log LOG one of [DEBUG, INFO, ERROR, WARNING, CRITICAL]
`/usr/bin/gnat`	GNAT 9.4.0 Copyright (C) 1996-2019, Free Software Foundation, Inc. This is free software; see the source for copying conditions. There is NO warranty; not even for MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.
`/usr/bin/gnatmake`	GNATMAKE 9.4.0 Copyright (C) 1995-2019, Free Software Foundation, Inc. This is free software; see the source for copying conditions. There is NO warranty; not even for MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.
`/usr/bin/go`	go version go1.13.8 linux/amd64
`/usr/bin/google-chrome`	Google Chrome 111.0.5563.146
`/usr/bin/gp`	GP/PARI CALCULATOR Version 2.11.2 (released) amd64 running linux (x86-64/GMP-6.1.2 kernel) 64-bit version compiled: Jul 12 2019, gcc version 9.1.0 (Ubuntu 9.1.0-8ubuntu1) threading engine: pthread (readline v8.0 disabled, extended help enabled)
`/usr/bin/gradle`	Picked up _JAVA_OPTIONS: -Xms64m ------------------------------------------------------------ Gradle 7.4.2 ------------------------------------------------------------ Build time: 2022-03-31 15:25:29 UTC Revision: 540473b8118064efcc264694cbcaa4b677f61041 Kotlin: 1.5.31 Groovy: 3.0.9 Ant: Apache Ant(TM) version 1.10.11 compiled on July 10 2021 JVM: 11.0.18 (Ubuntu 11.0.18+10-post-Ubuntu-0ubuntu120.04.1) OS: Linux 5.13.0-1033-gcp amd64
`/usr/bin/grass`	GRASS GIS 7.8.2 Geographic Resources Analysis Support System (GRASS) is Copyright, 1999-2019 by the GRASS Development Team, and licensed under terms of the GNU General Public License (GPL) version >=2. This GRASS GIS 7.8.2 release is coordinated and produced by the GRASS Development Team with contributions from all over the world. This program is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU General Public License for more details.
`/usr/bin/grepcidr`	grepcidr 2.0 Copyright (C) 2004 - 2014 Jem E. Berkes <[email protected]>
`/usr/bin/gringo`	gringo version 5.4.0 Address model: 64-bit libgringo version 5.4.0 Configuration: with Python 3.8.2rc2, with Lua 5.3.3 License: The MIT License <https://opensource.org/licenses/MIT>
`/usr/bin/gst`	GNU Smalltalk version 3.2.5 Copyright 2009 Free Software Foundation, Inc. Written by Steve Byrne ([email protected]) and Paolo Bonzini ([email protected]) GNU Smalltalk comes with NO WARRANTY, to the extent permitted by law. You may redistribute copies of GNU Smalltalk under the terms of the GNU General Public License. For more information, see the file named COPYING. Using default kernel path: /usr/share/gnu-smalltalk/kernel Using default image path: /usr/lib/gnu-smalltalk
`/usr/bin/guile`	guile (GNU Guile) 2.2.7 Packaged by Debian (2.2.7-deb+1-4) Copyright (C) 2020 Free Software Foundation, Inc. License LGPLv3+: GNU LGPL 3 or later <http://gnu.org/licenses/lgpl.html>. This is free software: you are free to change and redistribute it. There is NO WARRANTY, to the extent permitted by law.
`/usr/bin/gyoto`	Gyoto 1.4.4 ABI compatibility version: 8 Copyright (c) 2011-2019 Frédéric Vincent, Thibaut Paumard, Odele Straub and Frédéric Lamy. GYOTO is distributed under the terms of the GPL v. 3 license. We request that use of Gyoto in scientific publications be properly acknowledged. Please cite: GYOTO: a new general relativistic ray-tracing code, F. H. Vincent, T. Paumard, E. Gourgoulhon & G. Perrin 2011, Classical and Quantum Gravity 28, 225011 (2011) [arXiv:1109.4769]
`/usr/bin/h5dump`	h5dump: Version 1.10.4
`/usr/bin/h5math`	h5totxt 1.13.1 by Steven G. Johnson Copyright (c) 1999-2017 Massachusetts Institute of Technology Permission is hereby granted, free of charge, to any person obtaining a copy of this software and associated documentation files (the "Software"), to deal in the Software without restriction, including without limitation the rights to use, copy, modify, merge, publish, distribute, sublicense, and/or sell copies of the Software, and to permit persons to whom the Software is furnished to do so, subject to the following conditions: The above copyright notice and this permission notice shall be included in all copies or substantial portions of the Software. THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE SOFTWARE.
`/usr/bin/hardlink`	hardlink 0.3 RC2 Compiled Dec 6 2019 at 22:36:11
`/usr/bin/haskell-compiler`	The Glorious Glasgow Haskell Compilation System, version 8.6.5
`/usr/bin/haxe`	4.2.5
`/usr/bin/haxelib`	Unknown command --help Haxe Library Manager 4.0.2 - (c)2006-2019 Haxe Foundation Usage: haxelib [command] [options] Basic install : install a given library, or all libraries from a hxml file update : update a single library (if given) or all installed libraries remove : remove a given library/version list : list all installed libraries set : set the current version for a library Information search : list libraries matching a word info : list information on a given library user : list information on a given user config : print the repository path path : give paths to libraries' sources and necessary build definitions libpath : returns the root path of a library version : print the currently used haxelib version help : display this list of options Development submit : submit or update a library package register : register a new user dev : set the development directory for a given library git : use Git repository as library hg : use Mercurial (hg) repository as library Miscellaneous setup : set the haxelib repository path newrepo : create a new local repository deleterepo : delete the local repository convertxml : convert haxelib.xml file to haxelib.json run : run the specified library with parameters proxy : setup the Http proxy Available switches --flat : do not use --recursive cloning for git --always : answer all questions with yes --debug : run in debug mode, imply not --quiet --quiet : print less messages, imply not --debug --system : run bundled haxelib version instead of latest update --skip-dependencies: do not install dependencies --never : answer all questions with no --global : force global repo if a local one exists
`/usr/bin/head`	mglconv convert mgl script to image file (default PNG). Current version is 2.4.4
`/usr/local/bin/heroku`	› Warning: heroku update available from 7.53.0 to 8.0.2. heroku/7.53.0 linux-x64 node-v12.21.0
`/usr/local/bin/hg`	Mercurial Distributed SCM (version 6.2.2) (see https://mercurial-scm.org for more information) Copyright (C) 2005-2022 Olivia Mackall and others This is free software; see the source for copying conditions. There is NO warranty; not even for MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.
`/usr/bin/hisat2`	/usr/bin/hisat2-align-s version 2.1.0 64-bit Built on Debian 11 February 2020 Compiler: gcc version 9.2.1 20200203 (Ubuntu 9.2.1-28ubuntu1) Options: -O3 -funroll-loops -g3 -Wdate-time -D_FORTIFY_SOURCE=2 Sizeof {int, long, long long, void*, size_t, off_t}: {4, 8, 8, 8, 8, 8}
`/usr/bin/htop`	htop 2.2.0 - (C) 2004-2019 Hisham Muhammad Released under the GNU GPL.
`/usr/bin/ijs`	ijavascript 5.2.1 jmp 2.0.0 jp-kernel 2.0.0 nel 1.3.0 uuid 3.4.0 zeromq 5.2.8
`/usr/bin/inkscape`	Inkscape 0.92.5 (2060ec1f9f, 2020-04-08)
`/ext/bin/ipopt`	Ipopt 3.14.5 (Linux x86_64), ASL(20160307)
`/ext/anaconda2020.02/bin/ipython`	7.32.0
`/ext/anaconda2021.11/bin/ipython`	7.29.0
`/usr/local/bin/ipython`	7.34.0
`/usr/local/bin/ipython2`	5.10.0
`/usr/local/bin/ipython3`	7.34.0
`/usr/bin/irssi`	irssi 1.2.2-1ubuntu1.1 (20190829 0225)
`/usr/bin/iverilog`	Icarus Verilog version 10.3 (stable) () Copyright 1998-2015 Stephen Williams This program is free software; you can redistribute it and/or modify it under the terms of the GNU General Public License as published by the Free Software Foundation; either version 2 of the License, or (at your option) any later version. This program is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU General Public License for more details. You should have received a copy of the GNU General Public License along with this program; if not, write to the Free Software Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301, USA. Icarus Verilog Preprocessor version 10.3 (stable) () Copyright (c) 1999-2011,2015 Stephen Williams ([email protected]) This program is free software; you can redistribute it and/or modify it under the terms of the GNU General Public License as published by the Free Software Foundation; either version 2 of the License, or (at your option) any later version. This program is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU General Public License for more details. You should have received a copy of the GNU General Public License along with this program; if not, write to the Free Software Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301, USA. Icarus Verilog Parser/Elaborator version 10.3 (stable) () Copyright (c) 1998-2017 Stephen Williams ([email protected]) This program is free software; you can redistribute it and/or modify it under the terms of the GNU General Public License as published by the Free Software Foundation; either version 2 of the License, or (at your option) any later version. This program is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU General Public License for more details. You should have received a copy of the GNU General Public License along with this program; if not, write to the Free Software Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301, USA. FLAGS DLL vvp.tgt vvp.tgt: Icarus Verilog VVP Code Generator 10.3 (stable) () Copyright (c) 2001-2015 Stephen Williams ([email protected]) This program is free software; you can redistribute it and/or modify it under the terms of the GNU General Public License as published by the Free Software Foundation; either version 2 of the License, or (at your option) any later version. This program is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU General Public License for more details. You should have received a copy of the GNU General Public License along with this program; if not, write to the Free Software Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301, USA.
`/usr/bin/jags`	Welcome to JAGS 4.3.0 on Fri Mar 31 09:52:50 2023 JAGS is free software and comes with ABSOLUTELY NO WARRANTY Loading module: basemod: ok Loading module: bugs: ok
`/usr/bin/java`	Picked up _JAVA_OPTIONS: -Xms64m openjdk version "11.0.18" 2023-01-17 OpenJDK Runtime Environment (build 11.0.18+10-post-Ubuntu-0ubuntu120.04.1) OpenJDK 64-Bit Server VM (build 11.0.18+10-post-Ubuntu-0ubuntu120.04.1, mixed mode, sharing)
`/usr/bin/javac`	Picked up _JAVA_OPTIONS: -Xms64m javac 11.0.18
`/ext/bin/julia`	julia version 1.8.4
`/ext/bin/julia-1.6`	julia version 1.6.3
`/usr/local/bin/jupyter-lab`	3.5.1
`/usr/local/bin/jupyter-nbconvert`	7.2.6
`/usr/local/bin/jupyter-notebook`	6.5.2
`/usr/local/bin/jupyterhub`	1.1.0
`/usr/local/bin/jupytext`	usage: jupytext [-h] [--from INPUT_FORMAT] [--to OUTPUT_FORMAT] [-o OUTPUT] [--update] [--set-formats SET_FORMATS] [--sync] [--paired-paths] [--format-options FORMAT_OPTIONS] [--update-metadata UPDATE_METADATA] [--use-source-timestamp] [--warn-only] [--test] [--test-strict] [--stop] [--pipe PIPE] [--diff] [--diff-format DIFF_FORMAT] [--check CHECK] [--pipe-fmt PIPE_FMT] [--set-kernel SET_KERNEL] [--execute] [--run-path RUN_PATH] [--quiet] [--show-changes] [--version] [--pre-commit] [--pre-commit-mode] [notebooks [notebooks ...]] Jupyter Notebooks as Markdown Documents, Julia, Python or R Scripts positional arguments: notebooks One or more notebook(s). Notebook is read from stdin when this argument is empty. (default: None) optional arguments: -h, --help show this help message and exit --from INPUT_FORMAT Jupytext format for the input(s). Inferred from the file extension and content when missing. (default: None) --to OUTPUT_FORMAT The destination format: 'ipynb', 'markdown' or 'script', or a file extension: 'md', 'Rmd', 'jl', 'py', 'R', ..., 'auto' (script extension matching the notebook language), or a combination of an extension and a format name, e.g. md:pandoc, md:markdown, md:myst or py:nomarker, py:sphinx, py:light, py:hydrogen, py:percent. The default format for scripts is the 'light' format, which uses few cell markers (none when possible). Alternatively, a format compatible with many editors is the 'percent' format, which uses '# %%' as cell markers. The main formats (markdown, light, percent) preserve notebooks and text documents in a roundtrip. Use the --test and and --test-strict commands to test the roundtrip on your files. Read more about the available formats at https://jupytext.readthedocs.io/en/latest/formats.html (default: None) -o OUTPUT, --output OUTPUT Destination file. Defaults to the original file, with prefix/suffix/extension changed according to the destination format. Use '-' to print the notebook on stdout. (default: None) --update Preserve the output cells when the destination notebook is an .ipynb file that already exists (default: False) --set-formats SET_FORMATS Turn the notebook or text document to one or more alternative representations with e.g. '--set-formats ipynb,py:light'. The --set-formats option also triggers the creation/update of all paired files (default: None) --sync, -s Synchronize the content of the paired representations of the given notebook. Input cells are taken from the file that was last modified, and outputs are read from the ipynb file, if present. (default: False) --paired-paths, -p List the locations of the alternative representations for this notebook. (default: False) --format-options FORMAT_OPTIONS, --opt FORMAT_OPTIONS Set format options with e.g. '--opt comment_magics=true' or '--opt notebook_metadata_filter=-kernelspec'. (default: None) --update-metadata UPDATE_METADATA Update the notebook metadata with the desired dictionary. Argument must be given in JSON format. For instance, if you want to activate a pairing in the generated file, use e.g. --update-metadata '{"jupytext":{"formats":"ipynb,py:light"}}' See also the --opt and --set-formats options for other ways to operate on the Jupytext metadata. (default: {}) --use-source-timestamp Set the modification timestamp of the output file(s) equalto that of the source file, and keep the source file and its timestamp unchanged. (default: False) --warn-only, -w Only issue a warning and continue processing other notebooks when the conversion of a given notebook fails (default: False) --test Test that the notebook is stable under a round trip conversion, up to the expected changes (default: False) --test-strict Test that the notebook is strictly stable under a round trip conversion (default: False) --stop, -x In --test mode, stop on first round trip conversion error, and report stack traceback (default: False) --pipe PIPE Pipe the text representation (in format --pipe-fmt) of the notebook into another program, and read the notebook back. For instance, reformat your notebook with: 'jupytext notebook.ipynb --pipe black' If you want to reformat it and sync the paired representation, execute: 'jupytext notebook.ipynb --sync --pipe black' In case the program that you want to execute does not accept pipes, use {} as a placeholder for a temporary file name into which jupytext will write the text representation of the notebook, e.g.: jupytext notebook.ipynb --pipe 'black {}' (default: None) --diff, -d Show the differences between (the inputs) of two notebooks (default: False) --diff-format DIFF_FORMAT The text format used to show differences in --diff (default: None) --check CHECK Pipe the text representation (in format --pipe-fmt) of the notebook into another program, and test that the returned value is non zero. For instance, test that your notebook is pep8 compliant with: 'jupytext notebook.ipynb --check flake8' or run pytest on your notebook with: 'jupytext notebook.ipynb --check pytest' In case the program that you want to execute does not accept pipes, use {} as a placeholder for a temporary file name into which jupytext will write the text representation of the notebook, e.g.: jupytext notebook.ipynb --check 'pytest {}' (default: None) --pipe-fmt PIPE_FMT The format in which the notebook should be piped to other programs, when using the --pipe and/or --check commands. (default: auto:percent) --set-kernel SET_KERNEL, -k SET_KERNEL Set the kernel with the given name on the notebook. Use '--set-kernel -' to set a kernel matching the current environment on Python notebooks, and matching the notebook language otherwise (get the list of available kernels with 'jupyter kernelspec list') (default: None) --execute Execute the notebook with the given kernel. In the --pre-commit-mode, the notebook is executed only if a code cell changed, or if some execution outputs are missing or not ordered. (default: False) --run-path RUN_PATH Execute the notebook at the given path (defaults to the notebook parent directory) (default: None) --quiet, -q Quiet mode: do not comment about files being updated or created (default: False) --show-changes Display the diff for each output file (default: False) --version, -v Show jupytext's version number and exit (default: False) --pre-commit Ignore the notebook argument, and instead apply Jupytext on the notebooks found in the git index, which have an extension that matches the (optional) --from argument. (default: False) --pre-commit-mode This is a mode that is compatible with the pre-commit framework. In this mode, --sync won't use timestamp but instead will determines the source notebook as the element of the pair that is added to the git index. An alert is raised if multiple inconsistent representations are in the index. It also raises an alert after updating the paired files or outputs if those files need to be added to the index. Finally, filepaths that aren't in the source format you are trying to convert from are ignored. (default: False)
`/usr/bin/jurism`	Jurism Zotero 5.0.93m18, Copyright (c) 2006-2020 Contributors
`/usr/bin/latex`	pdfTeX 3.14159265-2.6-1.40.20 (TeX Live 2019/Debian) kpathsea version 6.3.1 Copyright 2019 Han The Thanh (pdfTeX) et al. There is NO warranty. Redistribution of this software is covered by the terms of both the pdfTeX copyright and the Lesser GNU General Public License. For more information about these matters, see the file named COPYING and the pdfTeX source. Primary author of pdfTeX: Han The Thanh (pdfTeX) et al. Compiled with libpng 1.6.37; using libpng 1.6.37 Compiled with zlib 1.2.11; using zlib 1.2.11 Compiled with xpdf version 4.01
`/usr/bin/latexmk`	Latexmk, John Collins, 26 Dec. 2019. Version 4.67
`/ext/bin/lean`	Lean (version 3.11.0, commit fb3f3e88be8a, Release)
`/usr/bin/lfm`	usage: lfm [-h] [-d] [-w] [--restore-config] [--restore-keys] [--restore-theme] [--delete-history] [path1] [path2] lfm v3.0 - (C) 2001-17, by Iñigo Serna <[email protected]> positional arguments: path1 Path to show in left pane (default: ".") path2 Path to show in right pane (default: ".") optional arguments: -h, --help show this help message and exit -d, --debug Enable debug level in log file -w, --use-wide-chars Enable support for wide chars --restore-config Restore default configuration --restore-keys Restore default key bindings --restore-theme Restore default theme --delete-history Delete history 'Last File Manager' is a powerful file manager for UNIX console. It has a curses interface and it's written in Python version 3.4+. Released under GNU Public License, read COPYING file for more details.
`/usr/bin/libreoffice`	LibreOffice 6.4.7.2 40(Build:2)
`/usr/bin/lilypond`	GNU LilyPond 2.20.0 Copyright (c) 1996--2015 by Han-Wen Nienhuys <[email protected]> Jan Nieuwenhuizen <[email protected]> and others. This program is free software. It is covered by the GNU General Public License and you are welcome to change it and/or distribute copies of it under certain conditions. Invoke as `lilypond --warranty' for more information.
`/usr/bin/lneato`	lneato version 95 (04-18-95) Error: Can't open display:
`/usr/bin/lrzip`	lrzip version 0.631
`/usr/bin/lua`	Lua 5.2.4 Copyright (C) 1994-2015 Lua.org, PUC-Rio
`/usr/bin/lua5.3`	Lua 5.3.3 Copyright (C) 1994-2016 Lua.org, PUC-Rio
`/usr/bin/luatex`	This is LuaTeX, Version 1.10.0 (TeX Live 2019/Debian) Execute 'luatex --credits' for credits and version details. There is NO warranty. Redistribution of this software is covered by the terms of the GNU General Public License, version 2 or (at your option) any later version. For more information about these matters, see the file named COPYING and the LuaTeX source. LuaTeX is Copyright 2019 Taco Hoekwater and the LuaTeX Team.
`/usr/bin/lzma`	xz (XZ Utils) 5.2.4 liblzma 5.2.4
`/usr/bin/M2`	1.18
`/usr/bin/m4`	m4 (GNU M4) 1.4.18 Copyright (C) 2016 Free Software Foundation, Inc. License GPLv3+: GNU GPL version 3 or later <http://gnu.org/licenses/gpl.html>. This is free software: you are free to change and redistribute it. There is NO WARRANTY, to the extent permitted by law. Written by Rene' Seindal.
`/ext/bin/macs2`	macs2 2.2.7.1
`/ext/bin/mageck`	0.5.9.5
`/usr/bin/make`	GNU Make 4.2.1 Built for x86_64-pc-linux-gnu Copyright (C) 1988-2016 Free Software Foundation, Inc. License GPLv3+: GNU GPL version 3 or later <http://gnu.org/licenses/gpl.html> This is free software: you are free to change and redistribute it. There is NO WARRANTY, to the extent permitted by law.
`/usr/bin/markdown`	This is Markdown, version 1.0.1. Copyright 2004 John Gruber http://daringfireball.net/projects/markdown/
`/usr/bin/materialized`	materialized v0.26.6 (5ad960ec7)
`/ext/bin/mathics`	mathics 4.0.0
`/usr/bin/maxima`	Maxima 5.43.2
`/usr/local/bin/maxima-sage`	;;; Loading #P"/ext/sage/9.8/local/lib/ecl-21.2.1/sb-bsd-sockets.fas" ;;; Loading #P"/ext/sage/9.8/local/lib/ecl-21.2.1/sockets.fas" Maxima 5.45.0
`/usr/bin/mc`	GNU Midnight Commander 4.8.24 Built with GLib 2.63.3 Using the S-Lang library with terminfo database With builtin Editor and Aspell support With subshell support as default With support for background operations With mouse support on xterm and Linux console With support for X11 events With internationalization support With multiple codepages support Virtual File Systems: cpiofs, tarfs, sfs, extfs, ext2undelfs, ftpfs, sftpfs, fish Data types: char: 8; int: 32; long: 64; void *: 64; size_t: 64; off_t: 64;
`/usr/local/bin/meson`	0.55.0
`/usr/bin/mongo`	MongoDB shell version v4.2.24 git version: 5e4ec1d24431fcdd28b579a024c5c801b8cde4e2 OpenSSL version: OpenSSL 1.1.1f 31 Mar 2020 allocator: tcmalloc modules: none build environment: distmod: ubuntu1804 distarch: x86_64 target_arch: x86_64
`/usr/bin/mongod`	db version v4.2.24 git version: 5e4ec1d24431fcdd28b579a024c5c801b8cde4e2 OpenSSL version: OpenSSL 1.1.1f 31 Mar 2020 allocator: tcmalloc modules: none build environment: distmod: ubuntu1804 distarch: x86_64 target_arch: x86_64
`/usr/bin/mono`	Mono JIT compiler version 6.8.0.105 (Debian 6.8.0.105+dfsg-2 Wed Feb 26 23:23:50 UTC 2020) Copyright (C) 2002-2014 Novell, Inc, Xamarin Inc and Contributors. www.mono-project.com TLS: __thread SIGSEGV: altstack Notifications: epoll Architecture: amd64 Disabled: none Misc: softdebug Interpreter: yes LLVM: supported, not enabled. Suspend: hybrid GC: sgen (concurrent by default)
`/usr/bin/mpiexec`	mpiexec (OpenRTE) 4.0.3 Report bugs to http://www.open-mpi.org/community/help/
`/usr/local/bin/mzcli`	Version: 3.0.0
`/usr/bin/nano`	GNU nano, version 4.8 (C) 1999-2011, 2013-2020 Free Software Foundation, Inc. (C) 2014-2020 the contributors to nano Email: [email protected] Web: https://nano-editor.org/ Compiled options: --disable-libmagic --enable-utf8
`/usr/local/bin/nasm`	NASM version 2.15.05 compiled on Aug 18 2021
`/usr/local/bin/nbdime`	3.1.1
`/usr/bin/neofetch`	Neofetch 7.0.0
`/usr/bin/nettle-hash`	nettle-hash (nettle 3.5.1)
`/usr/bin/nim`	Nim Compiler Version 1.0.6 [Linux: amd64] Compiled at 2020-02-27 Copyright (c) 2006-2019 by Andreas Rumpf active boot switches: -d:release
`/usr/local/bin/ninja`	1.10.2.git.kitware.jobserver-1
`/usr/bin/nnn`	3.0
`/usr/bin/node`	v14.21.3
`/usr/bin/nosetests3`	/usr/lib/python3/dist-packages/nose/plugins/manager.py:394: RuntimeWarning: Unable to load plugin warnaserror = bayespy.testing:WarnAsError: scipy.optimize.optimize is deprecated and has no attribute _epsilon. Try looking in scipy.optimize instead. warn("Unable to load plugin %s: %s" % (ep, e), nosetests3 version 1.3.7
`/usr/local/bin/notedown`	1.5.1
`/usr/bin/npm`	9.6.2
`/usr/bin/nvim`	NVIM v0.4.3 Build type: Release LuaJIT 2.1.0-beta3 Compilation: /usr/bin/cc -g -O2 -fdebug-prefix-map=/build/neovim-gOb7vg/neovim-0.4.3=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=1 -DDISABLE_LOG -Wdate-time -D_FORTIFY_SOURCE=1 -O2 -DNDEBUG -DMIN_LOG_LEVEL=3 -Wall -Wextra -pedantic -Wno-unused-parameter -Wstrict-prototypes -std=gnu99 -Wshadow -Wconversion -Wmissing-prototypes -Wimplicit-fallthrough -Wvla -fstack-protector-strong -fdiagnostics-color=always -DINCLUDE_GENERATED_DECLARATIONS -D_GNU_SOURCE -DNVIM_MSGPACK_HAS_FLOAT32 -DNVIM_UNIBI_HAS_VAR_FROM -I/build/neovim-gOb7vg/neovim-0.4.3/build/config -I/build/neovim-gOb7vg/neovim-0.4.3/src -I/usr/include -I/usr/include/lua5.1 -I/build/neovim-gOb7vg/neovim-0.4.3/build/src/nvim/auto -I/build/neovim-gOb7vg/neovim-0.4.3/build/include Compiled by [email protected] Features: +acl +iconv +tui See ":help feature-compile" system vimrc file: "$VIM/sysinit.vim" fall-back for $VIM: "/usr/share/nvim" Run :checkhealth for more info
`/usr/bin/ocaml`	The OCaml toplevel, version 4.08.1
`/usr/local/bin/octave`	GNU Octave, version 7.1.0 Copyright (C) 1993-2022 The Octave Project Developers. This is free software; see the source code for copying conditions. There is ABSOLUTELY NO WARRANTY; not even for MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. Octave was configured for "x86_64-pc-linux-gnu". Additional information about Octave is available at https://www.octave.org. Please contribute if you find this software useful. For more information, visit https://www.octave.org/get-involved.html Read https://www.octave.org/bugs.html to learn how to submit bug reports.
`/usr/local/bin/octave-cli`	GNU Octave, version 7.1.0 Copyright (C) 1993-2022 The Octave Project Developers. This is free software; see the source code for copying conditions. There is ABSOLUTELY NO WARRANTY; not even for MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. Octave was configured for "x86_64-pc-linux-gnu". Additional information about Octave is available at https://www.octave.org. Please contribute if you find this software useful. For more information, visit https://www.octave.org/get-involved.html Read https://www.octave.org/bugs.html to learn how to submit bug reports.
`/usr/local/bin/ok`	okpy==v1.7.2
`/usr/bin/oligotm`	USAGE: oligotm OPTIONS oligo where oligo is a DNA sequence of between 2 and 36 bases and OPTIONS can include any of the the following: -mv monovalent_conc - concentration of monovalent cations in mM, by default 50mM -dv divalent_conc - concentration of divalent cations in mM, by default 0mM -n dNTP_conc - concentration of deoxynycleotide triphosphate in mM, by default 0mM -d dna_conc - concentration of DNA strands in nM, by default 50nM -tp [0\|1] - Specifies the table of thermodynamic parameters and the method of melting temperature calculation: 0 Breslauer et al., 1986 and Rychlik et al., 1990 (used by primer3 up to and including release 1.1.0). This is the default, but _not_ the recommended value. 1 Use nearest neighbor parameters from SantaLucia 1998 THIS IS THE RECOMMENDED VALUE -sc [0..2] - Specifies salt correction formula for the melting temperature calculation 0 Schildkraut and Lifson 1965, used by primer3 up to and including release 1.1.0. This is the default but _not_ the recommended value. 1 SantaLucia 1998 THIS IS THE RECOMMENDED VAULE 2 Owczarzy et al., 2004 Prints oligo's melting temperature on stdout.
`/usr/bin/opam`	2.0.5
`/usr/bin/openscad`	OpenSCAD version 2019.05
`/usr/bin/pandoc`	pandoc 3.1.1 Features: +server +lua Scripting engine: Lua 5.4 User data directory: /home/user/.local/share/pandoc Copyright (C) 2006-2023 John MacFarlane. Web: https://pandoc.org This is free software; see the source for copying conditions. There is no warranty, not even for merchantability or fitness for a particular purpose.
`/usr/local/bin/papermill`	2.4.0 from /usr/local/lib/python3.8/dist-packages/papermill/cli.py (3.8.10)
`/usr/bin/pdflatex`	pdfTeX 3.14159265-2.6-1.40.20 (TeX Live 2019/Debian) kpathsea version 6.3.1 Copyright 2019 Han The Thanh (pdfTeX) et al. There is NO warranty. Redistribution of this software is covered by the terms of both the pdfTeX copyright and the Lesser GNU General Public License. For more information about these matters, see the file named COPYING and the pdfTeX source. Primary author of pdfTeX: Han The Thanh (pdfTeX) et al. Compiled with libpng 1.6.37; using libpng 1.6.37 Compiled with zlib 1.2.11; using zlib 1.2.11 Compiled with xpdf version 4.01
`/usr/bin/pdftotext`	pdftotext version 0.86.1 Copyright 2005-2020 The Poppler Developers - http://poppler.freedesktop.org Copyright 1996-2011 Glyph & Cog, LLC
`/usr/bin/perl`	This is perl 5, version 30, subversion 0 (v5.30.0) built for x86_64-linux-gnu-thread-multi (with 57 registered patches, see perl -V for more detail) Copyright 1987-2019, Larry Wall Perl may be copied only under the terms of either the Artistic License or the GNU General Public License, which may be found in the Perl 5 source kit. Complete documentation for Perl, including FAQ lists, should be found on this system using "man perl" or "perldoc perl". If you have access to the Internet, point your browser at http://www.perl.org/, the Perl Home Page.
`/usr/bin/perldoc`	Perldoc v3.2801, under perl v5.030000 for linux
`/usr/bin/php`	PHP 7.4.3-4ubuntu2.18 (cli) (built: Feb 23 2023 12:43:23) ( NTS ) Copyright (c) The PHP Group Zend Engine v3.4.0, Copyright (c) Zend Technologies with Zend OPcache v7.4.3-4ubuntu2.18, Copyright (c), by Zend Technologies
`/ext/bin/phylip`	Starting main running main ['/ext/bin/phylip', 'test'] /ext/anaconda2020.02/share/phylip-3.697-0/exe testing dnapars... passed; cleaning up testing dnaml... passed; cleaning up testing dnadist... passed; cleaning up testing dnapenny... passed; cleaning up testing dnacomp... passed; cleaning up testing dnamlk... passed; cleaning up testing protpars... passed; cleaning up testing protdist... passed; cleaning up testing proml... passed; cleaning up testing promlk... passed; cleaning up testing pars... passed; cleaning up testing penny... passed; cleaning up testing dollop... passed; cleaning up testing dolpenny... passed; cleaning up testing clique... passed; cleaning up testing mix... passed; cleaning up testing restml... passed; cleaning up testing restdist... passed; cleaning up testing fitch... passed; cleaning up testing kitsch... passed; cleaning up testing neighbor... passed; cleaning up testing drawtree... passed; cleaning up testing drawgram... passed; cleaning up
`/usr/bin/pigz`	pigz 2.4
`/usr/local/bin/pip`	pip 23.0.1 from /usr/local/lib/python3.8/dist-packages/pip (python 3.8)
`/usr/local/bin/pip-upgrade`	1.4.15
`/usr/local/bin/pip2`	pip 20.2 from /usr/local/lib/python2.7/dist-packages/pip (python 2.7)
`/usr/local/bin/pip3`	pip 23.0.1 from /usr/local/lib/python3.8/dist-packages/pip (python 3.8)
`/usr/local/bin/pipenv`	pipenv, version 2023.3.20
`/ext/bin/plink`	@----------------------------------------------------------@ \| PLINK! \| v1.07 \| 10/Aug/2009 \| \|----------------------------------------------------------\| \| (C) 2009 Shaun Purcell, GNU General Public License, v2 \| \|----------------------------------------------------------\| \| For documentation, citation & bug-report instructions: \| \| http://pngu.mgh.harvard.edu/purcell/plink/ \| @----------------------------------------------------------@ Skipping web check... [ --noweb ] Writing this text to log file [ plink.log ] Analysis started: Fri Mar 31 09:54:00 2023 Options in effect: --noweb Before frequency and genotyping pruning, there are 0 SNPs 0 founders and 0 non-founders found 0 SNPs failed missingness test ( GENO > 1 ) 0 SNPs failed frequency test ( MAF < 0 ) After frequency and genotyping pruning, there are 0 SNPs ERROR: Stopping as there are no SNPs left for analysis
`/usr/bin/pm2`	pm2 launched in no-daemon mode (you can add DEBUG="*" env variable to get more messages) 2023-03-31T09:54:03: PM2 log: Launching in no daemon mode 5.3.0
`/usr/bin/pngnq`	pngnq 1.0 Compiled with libpng 1.6.23; using libpng 1.6.37. Compiled with zlib 1.2.8; using zlib 1.2.11.
`/usr/bin/pnpm`	7.30.5
`/usr/local/bin/poetry`	Poetry (version 1.4.1)
`/usr/bin/polymake`	polymake version 4.0 Copyright (c) 1997-2020 Ewgenij Gawrilow, Michael Joswig, and the polymake team Technische Universität Berlin, Germany https://polymake.org This is free software licensed under GPL; see the source for copying conditions. There is NO warranty; not even for MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.
`/usr/lib/postgresql/10/bin/postgres`	postgres (PostgreSQL) 10.23 (Ubuntu 10.23-1.pgdg20.04+1)
`/usr/local/bin/pretext`	1.5.1
`/usr/bin/prettier`	2.8.7
`/usr/bin/primer3_core`	Copyright (c) 1996-2017 Whitehead Institute for Biomedical Research, Steve Rozen (http://purl.com/STEVEROZEN/), Andreas Untergasser and Helen Skaletsky All rights reserved. This file is part of the primer3 suite and libraries. The primer3 suite and libraries are free software; you can redistribute them and/or modify them under the terms of the GNU General Public License as published by the Free Software Foundation; either version 2 of the License, or (at your option) any later version. This software is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU General Public License for more details. You should have received a copy of the GNU General Public License along with this software (file gpl-2.0.txt in the source distribution); if not, write to the Free Software Foundation, Inc., 51 Franklin St, Fifth Floor, Boston, MA 02110-1301 USA THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT OWNERS OR CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. USAGE: primer3_core [--format_output] [--default_version=1\|--default_version=2] [--io_version=4] [--p3_settings_file=<file_path>] [--echo_settings_file] [--strict_tags] [--output=<file_path>] [--error=<file_path>] [input_file] This is primer3 (libprimer3 release 2.4.0) Input can also be provided on standard input. For example: $ primer3_core < my_input_file
`/usr/bin/primesieve`	primesieve 7.5, <https://github.com/kimwalisch/primesieve> Copyright (C) 2010 - 2019 Kim Walisch BSD 2-Clause License <https://opensource.org/licenses/BSD-2-Clause>
`/usr/bin/prolog`	SWI-Prolog version 7.6.4 for amd64
`/usr/local/bin/py.test`	pytest 7.1.2
`/ext/bin/pypy3`	Python 3.9.10 (8276b505180f70c5784a698a510f0a17317a85c3, Feb 19 2022, 16:50:47) [PyPy 7.3.8 with GCC 10.2.1 20210130 (Red Hat 10.2.1-11)]
`/usr/local/bin/pytest`	pytest 7.1.2
`/ext/anaconda2020.02/bin/python`	Python 3.7.8
`/ext/anaconda2021.11/bin/python`	Python 3.9.7
`/usr/bin/python2`	Python 2.7.18
`/ext/bin/python3-sage`	Python 3.11.1
`/usr/bin/python3`	Python 3.8.10
`/usr/bin/pythontex`	PythonTeX 0.17
`/usr/bin/pythontex3`	PythonTeX 0.17
`/usr/local/bin/pytype`	2023.03.13
`/usr/bin/qgis`	QGIS 3.26.3-Buenos Aires 'Buenos Aires' (65e4edfdad)
`/usr/local/bin/quarto`	1.2.335
`/usr/bin/R`	R version 4.2.3 (2023-03-15) -- "Shortstop Beagle" Copyright (C) 2023 The R Foundation for Statistical Computing Platform: x86_64-pc-linux-gnu (64-bit) R is free software and comes with ABSOLUTELY NO WARRANTY. You are welcome to redistribute it under the terms of the GNU General Public License versions 2 or 3. For more information about these matters see https://www.gnu.org/licenses/.
`/usr/local/bin/R-sage`	R version 4.2.3 (2023-03-15) -- "Shortstop Beagle" Copyright (C) 2023 The R Foundation for Statistical Computing Platform: x86_64-pc-linux-gnu (64-bit) R is free software and comes with ABSOLUTELY NO WARRANTY. You are welcome to redistribute it under the terms of the GNU General Public License versions 2 or 3. For more information about these matters see https://www.gnu.org/licenses/.
`/ext/bin/RRA`	RRA - Robust Rank Aggreation v 0.5.9. usage: -i <input data file>. Format: <item id> <group id> <list id> <value> [<probability>] [<chosen>] -o <output file>. Format: <group id> <number of items in the group> <lo-value> <false discovery rate> -p <maximum percentile>. RRA only consider the items with percentile smaller than this parameter. Default=0.1 -P <minimum percentile>. RRA only consider the items with percentile greater than this parameter. Default=-1.0 --control <control_sgrna list>. A list of control sgRNA names. --permutation <int>. The number of rounds of permutation. Increase this value if the number of genes is small. Default 100. --no-permutation-by-group. By default, gene permutation is performed separately, by their number of sgRNAs. Turning this option will perform permutation on all genes together. This makes the program faster, but the p value estimation is accurate only if the number of sgRNAs per gene is approximately the same. --skip-gene <gene_name>. Genes to skip from doing permutation. Specify it multiple times if you need to skip more than 1 genes. --min-percentage-goodsgrna <min percentage>. Filter genes that have too few percentage of 'good sgrnas', or sgrnas that fall below the -p threshold. Must be a number between 0-1. Default 0 (do not filter genes). --min-number-goodsgrna <min number>. Filter genes that have too few number of 'good sgrnas', or sgrnas that fall below the -p threshold. Must be an integer. Default 0 (do not filter genes). --max-sgrnapergene-permutation <max number>. Only permute genes by group if the number of sgRNAs per gene is smaller than this number. This will save a lot of time if some regions are targeted by a large number of sgRNAs (usually hundreds). Must be an integer. Default 100. example: RRA -i input.txt -o output.txt -p 0.1
`/usr/bin/racket`	Welcome to Racket v8.6 [cs].
`/usr/bin/ranger`	ranger version: ranger 1.9.3 Python version: 3.8.10 (default, Mar 13 2023, 10:26:41) [GCC 9.4.0] Locale: en_US.UTF-8
`/usr/bin/rclone`	rclone v1.52.2 - os/arch: linux/amd64 - go version: go1.14.4
`/usr/bin/rdfind`	This is rdfind version 1.4.1
`/usr/bin/reveal-md`	5.4.1
`/usr/bin/rg`	ripgrep 11.0.2 -SIMD -AVX (compiled) +SIMD +AVX (runtime)
`/usr/bin/ros`	roswell 20.06.14.107(NO-GIT-REVISION)
`/usr/bin/Rscript`	Rscript (R) version 4.2.3 (2023-03-15)
`/usr/bin/rsync`	rsync version 3.1.3 protocol version 31 Copyright (C) 1996-2018 by Andrew Tridgell, Wayne Davison, and others. Web site: http://rsync.samba.org/ Capabilities: 64-bit files, 64-bit inums, 64-bit timestamps, 64-bit long ints, socketpairs, hardlinks, symlinks, IPv6, batchfiles, inplace, append, ACLs, xattrs, iconv, symtimes, prealloc rsync comes with ABSOLUTELY NO WARRANTY. This is free software, and you are welcome to redistribute it under certain conditions. See the GNU General Public Licence for details.
`/usr/bin/ruby`	ruby 2.7.0p0 (2019-12-25 revision 647ee6f091) [x86_64-linux-gnu]
`/usr/bin/run-one`	x
`/ext/bin/rustc`	rustc 1.68.1 (8460ca823 2023-03-20)
`/ext/bin/rustfmt`	rustfmt 1.5.1-stable (8460ca8 2023-03-20)
`/ext/bin/rustup`	rustup 1.25.2 (17db695f1 2023-02-01) info: This is the version for the rustup toolchain manager, not the rustc compiler. info: The currently active `rustc` version is `rustc 1.68.1 (8460ca823 2023-03-20)`
`/ext/bin/sage`	SageMath version 9.8, Release Date: 2023-02-11
`/ext/bin/sage-9.1`	SageMath version 9.1, Release Date: 2020-05-20
`/ext/bin/sage-9.2`	SageMath version 9.2, Release Date: 2020-10-24
`/ext/bin/sage-9.3`	SageMath version 9.3, Release Date: 2021-05-09
`/ext/bin/sage-9.4`	SageMath version 9.4, Release Date: 2021-08-22
`/ext/bin/sage-9.5`	SageMath version 9.5, Release Date: 2022-01-30
`/ext/bin/sage-9.6`	SageMath version 9.6, Release Date: 2022-05-15
`/ext/bin/sage-9.7`	SageMath version 9.7, Release Date: 2022-09-19
`/ext/bin/sage-9.8`	SageMath version 9.8, Release Date: 2023-02-11
`/ext/bin/samtools`	samtools 1.12 Using htslib 1.12 Copyright (C) 2021 Genome Research Ltd. Samtools compilation details: Features: build=configure curses=yes CC: /opt/conda/conda-bld/samtools_1616892191687/_build_env/bin/x86_64-conda-linux-gnu-cc CPPFLAGS: -DNDEBUG -D_FORTIFY_SOURCE=2 -O2 -isystem /ext/anaconda2020.02/include CFLAGS: -Wall -march=nocona -mtune=haswell -ftree-vectorize -fPIC -fstack-protector-strong -fno-plt -O2 -ffunction-sections -pipe -isystem /ext/anaconda2020.02/include -fdebug-prefix-map=/opt/conda/conda-bld/samtools_1616892191687/work=/usr/local/src/conda/samtools-1.12 -fdebug-prefix-map=/ext/anaconda2020.02=/usr/local/src/conda-prefix LDFLAGS: -Wl,-O2 -Wl,--sort-common -Wl,--as-needed -Wl,-z,relro -Wl,-z,now -Wl,--disable-new-dtags -Wl,--gc-sections -Wl,-rpath,/ext/anaconda2020.02/lib -Wl,-rpath-link,/ext/anaconda2020.02/lib -L/ext/anaconda2020.02/lib HTSDIR: LIBS: CURSES_LIB: -ltinfow -lncursesw HTSlib compilation details: Features: build=configure plugins=yes, plugin-path=/ext/anaconda2020.02/libexec/htslib libcurl=yes S3=yes GCS=yes libdeflate=yes lzma=yes bzip2=yes htscodecs=1.0 CC: /opt/conda/conda-bld/htslib_1616818599374/_build_env/bin/x86_64-conda-linux-gnu-cc CPPFLAGS: -DNDEBUG -D_FORTIFY_SOURCE=2 -O2 -isystem /ext/anaconda2020.02/include CFLAGS: -Wall -march=nocona -mtune=haswell -ftree-vectorize -fPIC -fstack-protector-strong -fno-plt -O2 -ffunction-sections -pipe -isystem /ext/anaconda2020.02/include -fdebug-prefix-map=/opt/conda/conda-bld/htslib_1616818599374/work=/usr/local/src/conda/htslib-1.12 -fdebug-prefix-map=/ext/anaconda2020.02=/usr/local/src/conda-prefix -fvisibility=hidden LDFLAGS: -Wl,-O2 -Wl,--sort-common -Wl,--as-needed -Wl,-z,relro -Wl,-z,now -Wl,--disable-new-dtags -Wl,--gc-sections -Wl,-rpath,/ext/anaconda2020.02/lib -Wl,-rpath-link,/ext/anaconda2020.02/lib -L/ext/anaconda2020.02/lib -fvisibility=hidden -rdynamic HTSlib URL scheme handlers present: built-in: preload, data, file S3 Multipart Upload: s3w, s3w+https, s3w+http Amazon S3: s3+https, s3+http, s3 libcurl: imaps, pop3, gophers, http, smb, gopher, sftp, ftps, imap, smtp, smtps, rtsp, scp, ftp, telnet, mqtt, https, smbs, tftp, pop3s, dict Google Cloud Storage: gs+http, gs+https, gs crypt4gh-needed: crypt4gh mem: mem
`/usr/bin/sbcl`	SBCL 2.0.1.debian
`/usr/bin/scala`	Picked up _JAVA_OPTIONS: -Xms64m Welcome to Scala 2.11.12 (OpenJDK 64-Bit Server VM, Java 11.0.18). Type in expressions for evaluation. Or try :help. scala> :quit
`/usr/bin/scheme`	MIT/GNU Scheme microcode 15.3 Copyright (C) 2019 Massachusetts Institute of Technology This is free software; see the source for copying conditions. There is NO warranty; not even for MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. Image saved on Thursday September 5, 2019 at 11:51:46 AM Release 10.1.10 \|\| Microcode 15.3 \|\| Runtime 15.7 \|\| SF 4.41 LIAR/x86-64 4.118 Happy happy joy joy!
`/usr/bin/scilab-cli-bin`	Scilab version "6.1.0.0" scilab-branch-master
`/ext/bin/scip`	SCIP version 8.0.3 [precision: 8 byte] [memory: block] [mode: optimized] [LP solver: Soplex 6.0.3] [GitHash: 62fab8a2e3] Copyright (C) 2002-2022 Konrad-Zuse-Zentrum fuer Informationstechnik Berlin (ZIB) External libraries: Soplex 6.0.3 Linear Programming Solver developed at Zuse Institute Berlin (soplex.zib.de) [GitHash: f900e3d0] CppAD 20180000.0 Algorithmic Differentiation of C++ algorithms developed by B. Bell (github.com/coin-or/CppAD) ZLIB 1.2.11 General purpose compression library by J. Gailly and M. Adler (zlib.net) GMP 6.2.1 GNU Multiple Precision Arithmetic Library developed by T. Granlund (gmplib.org) ZIMPL 3.5.3 Zuse Institute Mathematical Programming Language developed by T. Koch (zimpl.zib.de) AMPL/MP 4e2d45c4 AMPL .nl file reader library (github.com/ampl/mp) PaPILO 2.1.2 parallel presolve for integer and linear optimization (github.com/scipopt/papilo) [GitHash: 2fe2543] bliss 0.77 Computing Graph Automorphism Groups by T. Junttila and P. Kaski (www.tcs.hut.fi/Software/bliss/) Ipopt 3.13.2 Interior Point Optimizer developed by A. Waechter et.al. (github.com/coin-or/Ipopt) Compiler: gcc 9.4.0 Build options: ARCH=x86_64 OSTYPE=Linux-4.19.0-21-amd64 COMP=GNU 9.4.0 BUILD=Release DEBUGSOL=OFF EXPRINT=cppad SYM=bliss GMP=ON IPOPT=ON WORHP=OFF LPS=spx LPSCHECK=OFF NOBLKBUFMEM=OFF NOBLKMEM=OFF NOBUFMEM=OFF THREADSAFE=ON READLINE=off SANITIZE_ADDRESS=OFF SANITIZE_MEMORY=OFF SANITIZE_UNDEFINED=OFF SANITIZE_THREAD=OFF SHARED=ON VERSION=8.0.3.0 API_VERSION=104 ZIMPL=ON ZLIB=ON
`/usr/local/bin/scons`	SCons by Steven Knight et al.: SCons: v4.4.0.fc8d0ec215ee6cba8bc158ad40c099be0b598297, Sat, 30 Jul 2022 14:11:34 -0700, by bdbaddog on M1Dog2021 SCons path: ['/usr/local/lib/python3.8/dist-packages/SCons'] Copyright (c) 2001 - 2022 The SCons Foundation
`/usr/bin/sed`	sed (GNU sed) 4.7 Packaged by Debian Copyright (C) 2018 Free Software Foundation, Inc. License GPLv3+: GNU GPL version 3 or later <https://gnu.org/licenses/gpl.html>. This is free software: you are free to change and redistribute it. There is NO WARRANTY, to the extent permitted by law. Written by Jay Fenlason, Tom Lord, Ken Pizzini, Paolo Bonzini, Jim Meyering, and Assaf Gordon. GNU sed home page: <https://www.gnu.org/software/sed/>. General help using GNU software: <https://www.gnu.org/gethelp/>. E-mail bug reports to: <[email protected]>.
`/usr/bin/sha1sum`	sha1sum (GNU coreutils) 8.30 Copyright (C) 2018 Free Software Foundation, Inc. License GPLv3+: GNU GPL version 3 or later <https://gnu.org/licenses/gpl.html>. This is free software: you are free to change and redistribute it. There is NO WARRANTY, to the extent permitted by law. Written by Ulrich Drepper, Scott Miller, and David Madore.
`/usr/bin/sha256sum`	sha256sum (GNU coreutils) 8.30 Copyright (C) 2018 Free Software Foundation, Inc. License GPLv3+: GNU GPL version 3 or later <https://gnu.org/licenses/gpl.html>. This is free software: you are free to change and redistribute it. There is NO WARRANTY, to the extent permitted by law. Written by Ulrich Drepper, Scott Miller, and David Madore.
`/usr/local/bin/shiny`	Usage: shiny [OPTIONS] COMMAND [ARGS]... Options: --help Show this message and exit. Commands: create Create a Shiny application from a template. run Run a Shiny app (press Ctrl+C to stop). static The functionality from `shiny static` has been moved to... static-assets Manage local copy of assets for static app deployment.
`/usr/bin/Singular`	Singular for x86_64-Linux version 4.1.1 (4112, 64 bit) Mar 24 2020 14:10:46 #debian-1:4.1.1-p2+ds-4build2 with GMP(6.2.0),NTL(11.4.3),FLINT(2.5.2),factory(4.1.0), omalloc,static readline(8),Plural,DBM, dynamic modules,dynamic p_Procs,OM_NDEBUG,SING_NDEBUG, CC:OPTIMIZE,GenericAdd,GenericMult,no invTable, eigenvalues,Gauss-Manin system,random=1680256281 built-in modules: {} AC_CONFIGURE_ARGS = '--build=x86_64-linux-gnu' '--prefix=/usr' '--includedir=${prefix}/include' '--mandir=${prefix}/share/man' '--infodir=${prefix}/share/info' '--sysconfdir=/etc' '--localstatedir=/var' '--disable-silent-rules' '--libdir=${prefix}/lib/x86_64-linux-gnu' '--libexecdir=${prefix}/lib/x86_64-linux-gnu' '--runstatedir=/run' '--disable-maintainer-mode' '--disable-dependency-tracking' 'build_alias=x86_64-linux-gnu' 'CFLAGS=-g -O2 -fdebug-prefix-map=/build/singular-hTIl2W/singular-4.1.1-p2+ds=. -fstack-protector-strong -Wformat -Werror=format-security' 'LDFLAGS=-Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now' 'CPPFLAGS=-Wdate-time -D_FORTIFY_SOURCE=2' 'CXXFLAGS=-g -O2 -fdebug-prefix-map=/build/singular-hTIl2W/singular-4.1.1-p2+ds=. -fstack-protector-strong -Wformat -Werror=format-security' --enable-omalloc OMALLOC_LIBS='/build/singular-hTIl2W/singular-4.1.1-p2+ds/omalloc/libsingular-omalloc.la' OMALLOC_INCLUDES='-I/build/singular-hTIl2W/singular-4.1.1-p2+ds' --with-Singular RESOURCES_LIBS='/build/singular-hTIl2W/singular-4.1.1-p2+ds/resources/libsingular-resources.la' RESOURCES_INCLUDES='-I/build/singular-hTIl2W/singular-4.1.1-p2+ds ' FACTORY_LIBS='/build/singular-hTIl2W/singular-4.1.1-p2+ds/factory/libsingular-factory.la' FACTORY_INCLUDES='-I/build/singular-hTIl2W/singular-4.1.1-p2+ds -I/build/singular-hTIl2W/singular-4.1.1-p2+ds/factory/include', CC = gcc,FLAGS : -g -O2 -fdebug-prefix-map=/build/singular-hTIl2W/singular-4.1.1-p2+ds=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -fno-common -O3 -Wno-unused-function -Wno-trigraphs -Wno-unused-parameter -Wunknown-pragmas -Wno-unused-variable -fomit-frame-pointer -fwrapv -fvisibility=default -finline-functions -fno-exceptions -fno-threadsafe-statics -fno-enforce-eh-specs -fconserve-space -funroll-loops -fno-delete-null-pointer-checks -pthread, CXX = g++,FLAGS : -g -O2 -fdebug-prefix-map=/build/singular-hTIl2W/singular-4.1.1-p2+ds=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -fno-common -O3 -Wno-unused-function -Wno-trigraphs -Wno-unused-parameter -Wunknown-pragmas -Wno-unused-variable -fomit-frame-pointer -fwrapv -fvisibility=default -finline-functions -fno-exceptions -fno-threadsafe-statics -fno-enforce-eh-specs -fconserve-space -funroll-loops -fno-delete-null-pointer-checks -fno-rtti, DEFS : ,CPPFLAGS : -Wdate-time -D_FORTIFY_SOURCE=2, LDFLAGS : -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -pipe -fno-common -g -O3 -Wno-unused-function -Wno-trigraphs -Wno-unused-parameter -Wunknown-pragmas -Wno-unused-variable -fomit-frame-pointer -fwrapv -fvisibility=default -finline-functions -fno-exceptions -fno-threadsafe-statics -fno-enforce-eh-specs -fconserve-space -funroll-loops -fno-delete-null-pointer-checks -rdynamic -Wl,-undefined,dynamic_lookup,LIBS : -lreadline -lncurses -lmpfr -lrt -lpthread (ver: 9.3.0) argv[0] : Singular SearchPath: /usr/bin/../share/singular/LIB:/usr/bin/../share/singular/factory:/usr/lib/x86_64-linux-gnu/singular/MOD:/usr/bin Singular : /usr/bin/Singular BinDir : /usr/bin ProcDir : /usr/lib/x86_64-linux-gnu/singular/MOD RootDir : /usr/bin/.. DataDir : /usr/bin/../share DefaultDir: /usr InfoFile : IdxFile : HtmlDir : ManualUrl : http://www.singular.uni-kl.de/Manual/ ExDir : Path : /usr/bin:/usr/lib/x86_64-linux-gnu/singular/MOD:/cocalc/bin:/home/user/bin:/ext/bin:/usr/lib/xpra:/opt/ghc/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/sbin:/bin:/ext/data/homer/bin:/ext/data/weblogo:/usr/lib/postgresql/10/bin emacs : /usr/bin/emacs xemacs : SingularEmacs: /usr/bin/Singular EmacsLoad : EmacsDir : SingularXterm: /usr/bin/Singular xterm : /usr/bin/xterm EmacsDir : Available HelpBrowsers: lynx-www, dummy, emacs, Current HelpBrowser: lynx-www SINGULAR / Development A Computer Algebra System for Polynomial Computations / version 4.1.1 0< by: W. Decker, G.-M. Greuel, G. Pfister, H. Schoenemann \ Feb 2018 FB Mathematik der Universitaet, D-67653 Kaiserslautern \ Debian 1:4.1.1-p2+ds-4build2 // ** Can not open /dev/null Auf Wiedersehen.
`/usr/local/bin/Singular-sage`	Singular for x86_64-Linux version 4.3.1 (4310, 64 bit) Feb 16 2023 23:21:50 with GMP(6.2.0),NTL(11.4.3),FLINT(2.8.0), omalloc,static readline(8),Plural,vspace(2),DBM, dynamic modules,OM_NDEBUG,SING_NDEBUG, CC:OPTIMIZE,GenericAdd,TableMult,no invTable, eigenvalues,Gauss-Manin system,random=1680256283 built-in modules: {} AC_CONFIGURE_ARGS = '--prefix=/ext/sage/9.8/local' '--libdir=/ext/sage/9.8/local/lib' '--disable-maintainer-mode' '--disable-dependency-tracking' '--exec-prefix=/ext/sage/9.8/local' '--bindir=/ext/sage/9.8/local/bin' '--with-ntl=/ext/sage/9.8/local' '--with-flint=/ext/sage/9.8/local' '--enable-gfanlib' '--enable-Singular' '--enable-factory' '--disable-doc' '--disable-polymake' '--without-python' '--without-pythonmodule' '--disable-python' '--disable-python_module' '--disable-python-module' '--disable-static' '--with-libparse' 'CC=gcc' 'CFLAGS=-g -O2' 'LDFLAGS=-Wl,-rpath-link,/ext/sage/9.8/local/lib -L/ext/sage/9.8/local/lib -Wl,-rpath,/ext/sage/9.8/local/lib -Wl,-rpath-link,/ext/sage/9.8/local/lib -L/ext/sage/9.8/local/lib -Wl,-rpath,/ext/sage/9.8/local/lib ' 'CXX=g++ -std=gnu++11' 'CXXFLAGS=-g -O2' --enable-omalloc OMALLOC_LIBS='/ext/sage/9.8/local/var/tmp/sage/build/singular-4.3.1p1/src/omalloc/libomalloc.la' OMALLOC_INCLUDES='-I/ext/sage/9.8/local/var/tmp/sage/build/singular-4.3.1p1/src' --htmldir=${prefix}/share/doc/singular --with-Singular RESOURCES_LIBS='/ext/sage/9.8/local/var/tmp/sage/build/singular-4.3.1p1/src/resources/libsingular_resources.la' RESOURCES_INCLUDES='-I/ext/sage/9.8/local/var/tmp/sage/build/singular-4.3.1p1/src ' FACTORY_LIBS='/ext/sage/9.8/local/var/tmp/sage/build/singular-4.3.1p1/src/factory/libfactory.la' FACTORY_INCLUDES='-I/ext/sage/9.8/local/var/tmp/sage/build/singular-4.3.1p1/src -I/ext/sage/9.8/local/var/tmp/sage/build/singular-4.3.1p1/src/factory -I/ext/sage/9.8/local/var/tmp/sage/build/singular-4.3.1p1/src/factory/include', CC = gcc,FLAGS : -g -O2 -pipe -fno-common -g0 -O3 -Wno-unused-function -Wno-trigraphs -Wno-unused-parameter -Wunknown-pragmas -Wno-unused-variable -fomit-frame-pointer -fwrapv -fvisibility=default -finline-functions -fno-exceptions -fconserve-space -funroll-loops -pthread -pthread, CXX = g++ -std=gnu++11,FLAGS : -g -O2 -pipe -fno-common -g0 -O3 -Wno-unused-function -Wno-trigraphs -Wno-unused-parameter -Wunknown-pragmas -Wno-unused-variable -fomit-frame-pointer -fwrapv -fvisibility=default -finline-functions -fno-exceptions -fno-threadsafe-statics -fno-enforce-eh-specs -fconserve-space -funroll-loops -fno-rtti -fno-delete-null-pointer-checks -pthread, DEFS : ,CPPFLAGS : , LDFLAGS : -Wl,-rpath-link,/ext/sage/9.8/local/lib -L/ext/sage/9.8/local/lib -Wl,-rpath,/ext/sage/9.8/local/lib -Wl,-rpath-link,/ext/sage/9.8/local/lib -L/ext/sage/9.8/local/lib -Wl,-rpath,/ext/sage/9.8/local/lib -pipe -fno-common -g0 -O3 -Wno-unused-function -Wno-trigraphs -Wno-unused-parameter -Wunknown-pragmas -Wno-unused-variable -fomit-frame-pointer -fwrapv -fvisibility=default -finline-functions -fno-exceptions -fconserve-space -funroll-loops -rdynamic -Wl,-undefined,dynamic_lookup,LIBS : -lcddgmp -lreadline -lncurses -lmpfr -lgmp -lrt -lpthread (ver: 9.4.0) argv[0] : Singular SearchPath: /ext/sage/9.8/local/bin/../share/singular/LIB:/ext/sage/9.8/local/bin/../share/factory:/ext/sage/9.8/local/bin/../libexec/singular/MOD:/ext/sage/9.8/local/libexec/singular/MOD:/ext/sage/9.8/local/bin:/ext/sage/9.8/local/bin/.. Singular : /ext/sage/9.8/local/bin/Singular BinDir : /ext/sage/9.8/local/bin ProcDir : /ext/sage/9.8/local/bin/..:/ext/sage/9.8/local/bin/../libexec/singular/MOD:/ext/sage/9.8/local/libexec/singular/MOD RootDir : /ext/sage/9.8/local/bin/.. DataDir : /ext/sage/9.8/local/bin/../share DefaultDir: /ext/sage/9.8/local InfoFile : /ext/sage/9.8/local/bin/../share/info/singular.info IdxFile : /ext/sage/9.8/local/bin/../share/singular/singular.idx HtmlDir : /ext/sage/9.8/local/bin/../share/doc/singular ManualUrl : https://www.singular.uni-kl.de/Manual/ ExDir : Path : /ext/sage/9.8/local/bin:/ext/sage/9.8/local/bin/..:/ext/sage/9.8/local/bin/../libexec/singular/MOD:/ext/sage/9.8/local/libexec/singular/MOD:/ext/sage/9.8/src/bin:/ext/sage/9.8/local/libexec/ccache:/ext/sage/9.8/build/bin:/ext/sage/9.8/local/var/lib/sage/venv-python3.11.1/bin:/cocalc/bin:/home/user/bin:/ext/bin:/usr/lib/xpra:/opt/ghc/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/ext/data/homer/bin:/ext/data/weblogo:/usr/lib/postgresql/10/bin emacs : /usr/bin/emacs-gtk xemacs : SingularEmacs: /ext/sage/9.8/local/bin/Singular EmacsLoad : /ext/sage/9.8/local/bin/../share/singular/emacs/.emacs-singular EmacsDir : /ext/sage/9.8/local/bin/../share/singular/emacs SingularXterm: /ext/sage/9.8/local/bin/Singular xterm : /usr/bin/xterm EmacsDir : /ext/sage/9.8/local/bin/../share/singular/emacs Available HelpBrowsers: info, lynx, lynx-www-idx, lynx-www, builtin, dummy, emacs, Current HelpBrowser: info SINGULAR / Development A Computer Algebra System for Polynomial Computations / version 4.3.1 0< by: W. Decker, G.-M. Greuel, G. Pfister, H. Schoenemann \ Jun 2022 FB Mathematik der Universitaet, D-67653 Kaiserslautern \ // ** Can not open /dev/null Auf Wiedersehen.
`/usr/bin/sml`	sml 110.79
`/ext/bin/soplex`	SoPlex version 6.0.3 [mode: optimized] [precision: 8 byte] [rational: GMP 6.2.1] [PaPILO 2.1.2 {2fe2543}] [githash: f900e3d0] Copyright (c) 1996-2022 Konrad-Zuse-Zentrum fuer Informationstechnik Berlin (ZIB) Error parsing setting string: no ':' separating parameter type and name. invalid option "--version" usage: soplex [options] <lpfile> <lpfile> linear program as .mps[.gz] or .lp[.gz] file general options: --readbas=<basfile> read starting basis from file --writebas=<basfile> write terminal basis to file --writefile=<lpfile> write LP to file in LP or MPS format depending on extension --writedual=<lpfile> write the dual LP to a file in LP or MPS formal depending on extension --<type>:<name>=<val> change parameter value using syntax of settings file entries --loadset=<setfile> load parameters from settings file (overruled by command line parameters) --saveset=<setfile> save parameters to settings file --diffset=<setfile> save modified parameters to settings file --extsol=<value> external solution for soplex to use for validation limits and tolerances: -t<s> set time limit to <s> seconds -i<n> set iteration limit to <n> -f<eps> set primal feasibility tolerance to <eps> -o<eps> set dual feasibility (optimality) tolerance to <eps> -l<eps> set validation tolerance to <eps> algorithmic settings (* indicates default): --readmode=<value> choose reading mode for <lpfile> (0* - floating-point, 1 - rational) --solvemode=<value> choose solving mode (0 - floating-point solve, 1* - auto, 2 - force iterative refinement) --arithmetic=<value> choose base arithmetic type (0 - double, 1 - quadprecision, 2 - higher multiprecision) --precision=<value> choose precision for multiprecision solve (only active when arithmetic=2, possible values 50,100,200, compile with mpfr for arbitrary precision) -s<value> choose simplifier/presolver (0 - off, 1* - internal, 2- PaPILO) -g<value> choose scaling (0 - off, 1 - uni-equilibrium, 2 - bi-equilibrium, 3 - geometric, 4 - iterated geometric, 5 - least squares, 6 - geometric-equilibrium) -p<value> choose pricing (0* - auto, 1 - dantzig, 2 - parmult, 3 - devex, 4 - quicksteep, 5 - steep) -r<value> choose ratio tester (0 - textbook, 1 - harris, 2 - fast, 3* - boundflipping) display options: -v<level> set verbosity to <level> (0 - error, 3 - normal, 5 - high) -x print primal solution -y print dual multipliers -X print primal solution in rational numbers -Y print dual multipliers in rational numbers -q display detailed statistics -c perform final check of optimal solution in original problem
`/usr/bin/sqlite`	2.8.17
`/usr/bin/sqlite3`	3.31.1 2020-01-27 19:55:54 3bfa9cc97da10598521b342961df8f5f68c7388fa117345eeb516eaa837balt1
`/usr/bin/sqlline`	[warning] /usr/bin/sqlline: Unable to locate mariadb-java-client in /usr/share/java [warning] /usr/bin/sqlline: Unable to locate hsqldb in /usr/share/java [warning] /usr/bin/sqlline: Unable to locate jtds in /usr/share/java Picked up _JAVA_OPTIONS: -Xms64m Usage: java sqlline.SqlLine -u <database url> the JDBC URL to connect to -n <username> the username to connect as -p <password> the password to connect as -d <driver class> the driver class to use --color=[true/false] control whether color is used for display --showHeader=[true/false] show column names in query results --headerInterval=ROWS; the interval between which heades are displayed --fastConnect=[true/false] skip building table/column list for tab-completion --autoCommit=[true/false] enable/disable automatic transaction commit --verbose=[true/false] show verbose error messages and debug info --showWarnings=[true/false] display connection warnings --force=[true/false] continue running script even after errors --maxWidth=MAXWIDTH the maximum width of the terminal --maxColumnWidth=MAXCOLWIDTH the maximum width to use when displaying columns --silent=[true/false] be more silent --autosave=[true/false] automatically save preferences --outputformat=[table/vertical/csv/tsv] format mode for result display --isolation=LEVEL set the transaction isolation level --help display this message
`/usr/bin/ssh`	OpenSSH_8.2p1 Ubuntu-4ubuntu0.5, OpenSSL 1.1.1f 31 Mar 2020
`/usr/local/bin/stack`	Version 2.3.1, Git revision de2a7b694f07de7e6cf17f8c92338c16286b2878 (8103 commits) x86_64 hpack-0.33.0
`/usr/local/bin/stapler`	usage: usage: stapler [options] mode (input.pdf\|input handle) ... [output.pdf] Modes: cat/sel: <inputfile>\|<input handle> [<pagerange>[<rotation>]] ... (output needed) Select the given pages/ranges from input files. No range means all pages. del: <inputfile> [<pagerange>[<rotation>]] ... (output needed) Select all but the given pages/ranges from input files. burst/split: <inputfile> ... (no output needed) Create one file per page in input pdf files (no output needed) zip: <inputfile>\|<input handle> [<pagerange>[<rotation>]] ... (output needed) Merge/Collate the given input files interleaved. background: <inputfile> [<pagerange>[<rotation>]] ... (output needed) Merge/Overlay the given input files interleaved. info: <inputfile> ... (no output needed) Display PDF metadata list-log(ical): <inputfile> Display the logical names of each page. Input handle: A single, upper-case letter as an alias to a file For example: A=input1.pdf B=input2.pdf Page ranges: n - single numbers mean single pages (e.g., 15) n-m - page ranges include the entire specified range (e.g. 1-6) m-n - negative ranges sort pages backwards (e.g., 6-3) Extended page range options: ...-end will be replaced with the last page in the file R, L, or D will rotate the respective range +90, -90, or 180 degrees, respectively. (e.g., 1-15R) positional arguments: mode requested stapler mode optional arguments: -h, --help show this help message and exit -o OWNERPW, --ownerpw OWNERPW Set owner password to encrypt output file with -u USERPW, --userpw USERPW Set user password to encrypt output file with -v, --verbose -f, --force Overwrite output file if it exists -d DESTDIR, --destdir DESTDIR directory where to store output file
`/usr/bin/sumo`	Eclipse SUMO sumo Version 1.16.0 Build features: Linux-5.4.0-137-generic x86_64 GNU 9.4.0 Release FMI Proj GUI Intl SWIG GDAL GL2PS Eigen Copyright (C) 2001-2023 German Aerospace Center (DLR) and others; https://sumo.dlr.de Eclipse SUMO sumo Version 1.16.0 is part of SUMO. This program and the accompanying materials are made available under the terms of the Eclipse Public License v2.0 which accompanies this distribution, and is available at http://www.eclipse.org/legal/epl-v20.html This program may also be made available under the following Secondary Licenses when the conditions for such availability set forth in the Eclipse Public License 2.0 are satisfied: GNU General Public License, version 2 or later which is available at https://www.gnu.org/licenses/old-licenses/gpl-2.0-standalone.html SPDX-License-Identifier: EPL-2.0 OR GPL-2.0-or-later
`/usr/bin/syco`	EMBOSS:6.6.0.0
`/usr/bin/symphony`	== Welcome to the SYMPHONY MILP Solver == Copyright 2000-2015 Ted Ralphs and others == All Rights Reserved. == Distributed under the Eclipse Public License 1.0 == Version: 5.6.16 == Build Date: Mar 24 2020
`/usr/bin/synctex`	This is SyncTeX command line utility, version 1.5 usage: synctex <subcommand> [options] [args] Synchronize TeXnology command-line client, version 1.21 The Synchronization TeXnology by Jérôme Laurens is a rather new feature of recent TeX engines. It allows to synchronize between input and output, which means to navigate from the source document to the typeset material and vice versa. Available subcommands: view to perform forwards synchronization edit to perform backwards synchronization update to update a synctex file after a dvi/xdv to pdf filter help this help Type 'synctex help <subcommand>' for help on a specific subcommand. There is also an undocumented test subcommand.
`/usr/bin/t1asm`	t1asm (LCDF t1utils) 1.41 Copyright (C) 1992-2017 I. Lee Hetherington, Eddie Kohler et al. This is free software; see the source for copying conditions. There is NO warranty, not even for merchantability or fitness for a particular purpose.
`/usr/bin/tclsh`	8.6
`/usr/local/bin/texsurgery`	usage: texsurgery [-h] [-pdf] [-tex] [-replace REPLACE REPLACE] [-find FIND] [-shuffle SHUFFLE SHUFFLE] [-randomseed RANDOMSEED] [--output_file OUTPUT_FILE] [--pdflatex-options ...] [input_file] TexSurgery passes code from latex files to jupyter kernels, and substitutes it by the corresponding output. positional arguments: input_file file to parse. Uses stdin if none given. optional arguments: -h, --help show this help message and exit -pdf create a pdf file from the modified latex (requires pdflatex installed). -tex just produce the modified latex (default). -replace REPLACE REPLACE finds a selector, replaces the first match with the replacement text, outputs the result -find FIND finds a selector, output the code for the innermost part of the selector -shuffle SHUFFLE SHUFFLE finds a parent selector, and shuffles all matches of the children selector within the parent, then outputs the result -randomseed RANDOMSEED randomseed for -shuffle --output_file OUTPUT_FILE, -o OUTPUT_FILE file to write the output to. --pdflatex-options ... options to pass to pdflatex (requires the -pdf option)
`/usr/bin/tidy`	HTML Tidy for Linux version 5.6.0
`/usr/bin/tmux`	tmux 3.0a
`/usr/local/bin/tmuxp`	tmuxp 1.5.4
`/usr/sbin/traceroute`	Modern traceroute for Linux, version 2.1.0 Copyright (c) 2016 Dmitry Butskoy, License: GPL v2 or any later
`/usr/bin/tsc`	Version 5.0.2
`/usr/bin/valgrind`	valgrind-3.15.0
`/usr/bin/vim`	VIM - Vi IMproved 8.1 (2018 May 18, compiled Mar 17 2023 11:08:34) Included patches: 1-2269, 3612, 3625, 3669, 3741 Modified by [email protected] Compiled by [email protected] Huge version with GTK3 GUI. Features included (+) or not (-): +acl -farsi -mouse_sysmouse -tag_any_white +arabic +file_in_path +mouse_urxvt +tcl +autocmd +find_in_path +mouse_xterm +termguicolors +autochdir +float +multi_byte +terminal -autoservername +folding +multi_lang +terminfo +balloon_eval -footer -mzscheme +termresponse +balloon_eval_term +fork() +netbeans_intg +textobjects +browse +gettext +num64 +textprop ++builtin_terms -hangul_input +packages +timers +byte_offset +iconv +path_extra +title +channel +insert_expand +perl +toolbar +cindent +job +persistent_undo +user_commands +clientserver +jumplist +postscript +vartabs +clipboard +keymap +printer +vertsplit +cmdline_compl +lambda +profile +virtualedit +cmdline_hist +langmap -python +visual +cmdline_info +libcall +python3 +visualextra +comments +linebreak +quickfix +viminfo +conceal +lispindent +reltime +vreplace +cryptv +listcmds +rightleft +wildignore +cscope +localmap -ruby +wildmenu +cursorbind +lua +scrollbind +windows +cursorshape +menu +signs +writebackup +dialog_con_gui +mksession +smartindent +X11 +diff +modify_fname +sound -xfontset +digraphs +mouse +spell +xim +dnd +mouseshape +startuptime +xpm -ebcdic +mouse_dec +statusline +xsmp_interact +emacs_tags +mouse_gpm -sun_workshop +xterm_clipboard +eval -mouse_jsbterm +syntax -xterm_save +ex_extra +mouse_netterm +tag_binary +extra_search +mouse_sgr -tag_old_static system vimrc file: "$VIM/vimrc" user vimrc file: "$HOME/.vimrc" 2nd user vimrc file: "~/.vim/vimrc" user exrc file: "$HOME/.exrc" system gvimrc file: "$VIM/gvimrc" user gvimrc file: "$HOME/.gvimrc" 2nd user gvimrc file: "~/.vim/gvimrc" defaults file: "$VIMRUNTIME/defaults.vim" system menu file: "$VIMRUNTIME/menu.vim" fall-back for $VIM: "/usr/share/vim" Compilation: gcc -c -I. -Iproto -DHAVE_CONFIG_H -DFEAT_GUI_GTK -pthread -I/usr/include/gtk-3.0 -I/usr/include/at-spi2-atk/2.0 -I/usr/include/at-spi-2.0 -I/usr/include/dbus-1.0 -I/usr/lib/x86_64-linux-gnu/dbus-1.0/include -I/usr/include/gtk-3.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -Wdate-time -g -O2 -fdebug-prefix-map=/build/vim-ZePlwz/vim-8.1.2269=. -fstack-protector-strong -Wformat -Werror=format-security -D_REENTRANT -U_FORTIFY_SOURCE -D_FORTIFY_SOURCE=1 Linking: gcc -Wl,-E -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -o vim -lgtk-3 -lgdk-3 -lpangocairo-1.0 -lpango-1.0 -lharfbuzz -latk-1.0 -lcairo-gobject -lcairo -lgdk_pixbuf-2.0 -lgio-2.0 -lgobject-2.0 -lglib-2.0 -lSM -lICE -lXpm -lXt -lX11 -lXdmcp -lSM -lICE -lm -ltinfo -lnsl -lselinux -lcanberra -lacl -lattr -lgpm -ldl -L/usr/lib -llua5.2 -Wl,-E -fstack-protector-strong -L/usr/local/lib -L/usr/lib/x86_64-linux-gnu/perl/5.30/CORE -lperl -ldl -lm -lpthread -lcrypt -L/usr/lib/python3.8/config-3.8-x86_64-linux-gnu -lpython3.8 -lcrypt -lpthread -ldl -lutil -lm -lm -L/usr/lib/x86_64-linux-gnu -ltcl8.6 -ldl -lz -lpthread -lm
`/usr/bin/vis`	vis v0.5 +curses +lua +tre +acl +selinux
`/usr/bin/wdiff`	wdiff (GNU wdiff) 1.2.2 Copyright (C) 1992, 1997, 1998, 1999, 2009, 2010, 2011, 2012 Free Software Foundation, Inc. This is free software; see the source for copying conditions. There is NO warranty; not even for MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. Written by Franc,ois Pinard <[email protected]>.
`/usr/local/bin/weasyprint`	WeasyPrint version 58.1
`/usr/bin/which`	/usr/sbin/rpcinfo
`/usr/bin/wordmatch`	EMBOSS:6.6.0.0
`/usr/bin/xclip`	xclip version 0.13 Copyright (C) 2001-2008 Kim Saunders et al. Distributed under the terms of the GNU GPL
`/usr/bin/xdotool`	xdotool version 3.20160805.1
`/usr/bin/xelatex`	XeTeX 3.14159265-2.6-0.999991 (TeX Live 2019/Debian) kpathsea version 6.3.1 Copyright 2019 SIL International, Jonathan Kew and Khaled Hosny. There is NO warranty. Redistribution of this software is covered by the terms of both the XeTeX copyright and the Lesser GNU General Public License. For more information about these matters, see the file named COPYING and the XeTeX source. Primary author of XeTeX: Jonathan Kew. Compiled with ICU version 66.1; using 66.1 Compiled with zlib version 1.2.11; using 1.2.11 Compiled with FreeType2 version 2.10.1; using 2.10.1 Compiled with Graphite2 version 1.3.13; using 1.3.13 Compiled with HarfBuzz version 2.6.4; using 2.6.4 Compiled with libpng version 1.6.37; using 1.6.37 Compiled with poppler version 0.68.0 Compiled with fontconfig version 2.13.1; using 2.13.1
`/usr/bin/xindy`	xindy release: unknown xindy script version: 1.18 xindy kernel version: 3.0 CLISP version 2.49.92 (2018-02-18) (built on lcy01-amd64-025.buildd [127.0.1.1]) architecture: X86_64
`/ext/bin/xpra`	xpra v4.0.6-r28351
`/usr/bin/xsel`	xsel version 1.2.0 by Conrad Parker <[email protected]>
`/usr/bin/xz`	xz (XZ Utils) 5.2.4 liblzma 5.2.4
`/usr/bin/yacc`	bison (GNU Bison) 3.5.1 Written by Robert Corbett and Richard Stallman. Copyright (C) 2020 Free Software Foundation, Inc. This is free software; see the source for copying conditions. There is NO warranty; not even for MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.
`/usr/local/bin/yapf`	yapf 0.32.0
`/usr/bin/z3`	Z3 version 4.8.7 - 64 bit
`/ext/bin/zig`	0.8.0
`/ext/bin/zimpl`	3.5.3
`/usr/bin/zotero`	Zotero Zotero 6.0.23, Copyright (c) 2006-2018 Contributors
`/usr/bin/zsh`	zsh 5.8 (x86_64-ubuntu-linux-gnu)

This information was collected at 20230331-0950.