Browse Source

gnu: Remove ".git" from "https://github/…/….git".

Until now, 'lookup-origin' and thus 'lookup-origin-revision' in (guix
swh) would sometimes return #f for these because the ".git" URLs are
redirects to the non-".git" URLs.  Consequently, 'guix lint -c archival'
would keep saying "scheduled Software Heritage archival"; likewise, the
fallback download code would fail.

* gnu/packages/ada.scm,
gnu/packages/admin.scm,
gnu/packages/aidc.scm,
gnu/packages/algebra.scm,
gnu/packages/android.scm,
gnu/packages/animation.scm,
gnu/packages/arcan.scm,
gnu/packages/assembly.scm,
gnu/packages/audio.scm,
gnu/packages/authentication.scm,
gnu/packages/avr.scm,
gnu/packages/axoloti.scm,
gnu/packages/backup.scm,
gnu/packages/bash.scm,
gnu/packages/benchmark.scm,
gnu/packages/bioconductor.scm,
gnu/packages/bioinformatics.scm,
gnu/packages/bittorrent.scm,
gnu/packages/boost.scm,
gnu/packages/build-tools.scm,
gnu/packages/c.scm,
gnu/packages/calendar.scm,
gnu/packages/cdrom.scm,
gnu/packages/check.scm,
gnu/packages/chemistry.scm,
gnu/packages/chez.scm,
gnu/packages/clojure.scm,
gnu/packages/code.scm,
gnu/packages/compression.scm,
gnu/packages/compton.scm,
gnu/packages/coq.scm,
gnu/packages/cpp.scm,
gnu/packages/cran.scm,
gnu/packages/crypto.scm,
gnu/packages/curl.scm,
gnu/packages/databases.scm,
gnu/packages/datastructures.scm,
gnu/packages/debug.scm,
gnu/packages/disk.scm,
gnu/packages/distributed.scm,
gnu/packages/django.scm,
gnu/packages/dlang.scm,
gnu/packages/dns.scm,
gnu/packages/docker.scm,
gnu/packages/education.scm,
gnu/packages/efi.scm,
gnu/packages/elixir.scm,
gnu/packages/emacs-xyz.scm,
gnu/packages/embedded.scm,
gnu/packages/emulators.scm,
gnu/packages/engineering.scm,
gnu/packages/erlang.scm,
gnu/packages/fabric-management.scm,
gnu/packages/file-systems.scm,
gnu/packages/finance.scm,
gnu/packages/firmware.scm,
gnu/packages/flashing-tools.scm,
gnu/packages/fonts.scm,
gnu/packages/fontutils.scm,
gnu/packages/fpga.scm,
gnu/packages/game-development.scm,
gnu/packages/games.scm,
gnu/packages/genealogy.scm,
gnu/packages/genimage.scm,
gnu/packages/geo.scm,
gnu/packages/gimp.scm,
gnu/packages/gl.scm,
gnu/packages/gnome-xyz.scm,
gnu/packages/gnome.scm,
gnu/packages/gnuzilla.scm,
gnu/packages/golang.scm,
gnu/packages/gpodder.scm,
gnu/packages/graph.scm,
gnu/packages/graphics.scm,
gnu/packages/graphviz.scm,
gnu/packages/groff.scm,
gnu/packages/groovy.scm,
gnu/packages/gtk.scm,
gnu/packages/guile-xyz.scm,
gnu/packages/guile.scm,
gnu/packages/hardware.scm,
gnu/packages/haskell-apps.scm,
gnu/packages/haskell-xyz.scm,
gnu/packages/hexedit.scm,
gnu/packages/i2p.scm,
gnu/packages/ibus.scm,
gnu/packages/image-processing.scm,
gnu/packages/image-viewers.scm,
gnu/packages/image.scm,
gnu/packages/ipfs.scm,
gnu/packages/java-graphics.scm,
gnu/packages/java-maths.scm,
gnu/packages/java.scm,
gnu/packages/javascript.scm,
gnu/packages/jrnl.scm,
gnu/packages/julia.scm,
gnu/packages/jupyter.scm,
gnu/packages/kodi.scm,
gnu/packages/language.scm,
gnu/packages/lego.scm,
gnu/packages/less.scm,
gnu/packages/libusb.scm,
gnu/packages/linux.scm,
gnu/packages/lirc.scm,
gnu/packages/lisp-xyz.scm,
gnu/packages/llvm.scm,
gnu/packages/logging.scm,
gnu/packages/lolcode.scm,
gnu/packages/lua.scm,
gnu/packages/lxde.scm,
gnu/packages/lxqt.scm,
gnu/packages/machine-learning.scm,
gnu/packages/mail.scm,
gnu/packages/markup.scm,
gnu/packages/maths.scm,
gnu/packages/maven.scm,
gnu/packages/mes.scm,
gnu/packages/messaging.scm,
gnu/packages/monitoring.scm,
gnu/packages/mpd.scm,
gnu/packages/music.scm,
gnu/packages/networking.scm,
gnu/packages/node-xyz.scm,
gnu/packages/ocaml.scm,
gnu/packages/ocr.scm,
gnu/packages/onc-rpc.scm,
gnu/packages/opencl.scm,
gnu/packages/opencog.scm,
gnu/packages/pantheon.scm,
gnu/packages/password-utils.scm,
gnu/packages/patchutils.scm,
gnu/packages/pdf.scm,
gnu/packages/perl6.scm,
gnu/packages/phabricator.scm,
gnu/packages/popt.scm,
gnu/packages/printers.scm,
gnu/packages/prolog.scm,
gnu/packages/protobuf.scm,
gnu/packages/pulseaudio.scm,
gnu/packages/python-crypto.scm,
gnu/packages/python-web.scm,
gnu/packages/python-xyz.scm,
gnu/packages/qt.scm,
gnu/packages/radio.scm,
gnu/packages/rails.scm,
gnu/packages/rdf.scm,
gnu/packages/rednotebook.scm,
gnu/packages/rpc.scm,
gnu/packages/rsync.scm,
gnu/packages/ruby.scm,
gnu/packages/rust.scm,
gnu/packages/scheme.scm,
gnu/packages/screen.scm,
gnu/packages/security-token.scm,
gnu/packages/selinux.scm,
gnu/packages/serialization.scm,
gnu/packages/shells.scm,
gnu/packages/shellutils.scm,
gnu/packages/simh.scm,
gnu/packages/sml.scm,
gnu/packages/ssh.scm,
gnu/packages/statistics.scm,
gnu/packages/stenography.scm,
gnu/packages/sync.scm,
gnu/packages/syncthing.scm,
gnu/packages/synergy.scm,
gnu/packages/telephony.scm,
gnu/packages/terminals.scm,
gnu/packages/tex.scm,
gnu/packages/texinfo.scm,
gnu/packages/text-editors.scm,
gnu/packages/textutils.scm,
gnu/packages/time.scm,
gnu/packages/tmux.scm,
gnu/packages/tor.scm,
gnu/packages/toys.scm,
gnu/packages/version-control.scm,
gnu/packages/video.scm,
gnu/packages/vim.scm,
gnu/packages/virtualization.scm,
gnu/packages/vlang.scm,
gnu/packages/vnc.scm,
gnu/packages/vpn.scm,
gnu/packages/web-browsers.scm,
gnu/packages/web.scm,
gnu/packages/wireservice.scm,
gnu/packages/wm.scm,
gnu/packages/wxwidgets.scm,
gnu/packages/xdisorg.scm,
gnu/packages/xml.scm,
gnu/packages/xorg.scm,
tests/lint.scm: Remove trailing ".git" from 'git-reference' URL.
gn-latest-20200725
Ludovic Courtès 1 year ago
parent
commit
b0e7b6992f
No known key found for this signature in database GPG Key ID: 90B11993D9AEBB5
192 changed files with 1673 additions and 1673 deletions
  1. +2
    -2
      gnu/packages/ada.scm
  2. +20
    -20
      gnu/packages/admin.scm
  3. +2
    -2
      gnu/packages/aidc.scm
  4. +8
    -8
      gnu/packages/algebra.scm
  5. +2
    -2
      gnu/packages/android.scm
  6. +1
    -1
      gnu/packages/animation.scm
  7. +3
    -3
      gnu/packages/arcan.scm
  8. +3
    -3
      gnu/packages/assembly.scm
  9. +24
    -24
      gnu/packages/audio.scm
  10. +1
    -1
      gnu/packages/authentication.scm
  11. +1
    -1
      gnu/packages/avr.scm
  12. +3
    -3
      gnu/packages/axoloti.scm
  13. +3
    -3
      gnu/packages/backup.scm
  14. +2
    -2
      gnu/packages/bash.scm
  15. +2
    -2
      gnu/packages/benchmark.scm
  16. +3
    -3
      gnu/packages/bioconductor.scm
  17. +116
    -116
      gnu/packages/bioinformatics.scm
  18. +4
    -4
      gnu/packages/bittorrent.scm
  19. +2
    -2
      gnu/packages/boost.scm
  20. +1
    -1
      gnu/packages/build-tools.scm
  21. +3
    -3
      gnu/packages/c.scm
  22. +1
    -1
      gnu/packages/calendar.scm
  23. +2
    -2
      gnu/packages/cdrom.scm
  24. +3
    -3
      gnu/packages/check.scm
  25. +2
    -2
      gnu/packages/chemistry.scm
  26. +7
    -7
      gnu/packages/chez.scm
  27. +5
    -5
      gnu/packages/clojure.scm
  28. +6
    -6
      gnu/packages/code.scm
  29. +9
    -9
      gnu/packages/compression.scm
  30. +2
    -2
      gnu/packages/compton.scm
  31. +4
    -4
      gnu/packages/coq.scm
  32. +7
    -7
      gnu/packages/cpp.scm
  33. +3
    -3
      gnu/packages/cran.scm
  34. +2
    -2
      gnu/packages/crypto.scm
  35. +1
    -1
      gnu/packages/curl.scm
  36. +5
    -5
      gnu/packages/databases.scm
  37. +3
    -3
      gnu/packages/datastructures.scm
  38. +2
    -2
      gnu/packages/debug.scm
  39. +6
    -6
      gnu/packages/disk.scm
  40. +1
    -1
      gnu/packages/distributed.scm
  41. +3
    -3
      gnu/packages/django.scm
  42. +9
    -9
      gnu/packages/dlang.scm
  43. +2
    -2
      gnu/packages/dns.scm
  44. +6
    -6
      gnu/packages/docker.scm
  45. +1
    -1
      gnu/packages/education.scm
  46. +1
    -1
      gnu/packages/efi.scm
  47. +1
    -1
      gnu/packages/elixir.scm
  48. +428
    -428
      gnu/packages/emacs-xyz.scm
  49. +10
    -10
      gnu/packages/embedded.scm
  50. +22
    -22
      gnu/packages/emulators.scm
  51. +12
    -12
      gnu/packages/engineering.scm
  52. +1
    -1
      gnu/packages/erlang.scm
  53. +1
    -1
      gnu/packages/fabric-management.scm
  54. +3
    -3
      gnu/packages/file-systems.scm
  55. +10
    -10
      gnu/packages/finance.scm
  56. +2
    -2
      gnu/packages/firmware.scm
  57. +6
    -6
      gnu/packages/flashing-tools.scm
  58. +10
    -10
      gnu/packages/fonts.scm
  59. +2
    -2
      gnu/packages/fontutils.scm
  60. +3
    -3
      gnu/packages/fpga.scm
  61. +9
    -9
      gnu/packages/game-development.scm
  62. +42
    -42
      gnu/packages/games.scm
  63. +1
    -1
      gnu/packages/genealogy.scm
  64. +1
    -1
      gnu/packages/genimage.scm
  65. +6
    -6
      gnu/packages/geo.scm
  66. +2
    -2
      gnu/packages/gimp.scm
  67. +3
    -3
      gnu/packages/gl.scm
  68. +8
    -8
      gnu/packages/gnome-xyz.scm
  69. +9
    -9
      gnu/packages/gnome.scm
  70. +1
    -1
      gnu/packages/gnuzilla.scm
  71. +60
    -60
      gnu/packages/golang.scm
  72. +1
    -1
      gnu/packages/gpodder.scm
  73. +4
    -4
      gnu/packages/graph.scm
  74. +6
    -6
      gnu/packages/graphics.scm
  75. +1
    -1
      gnu/packages/graphviz.scm
  76. +1
    -1
      gnu/packages/groff.scm
  77. +1
    -1
      gnu/packages/groovy.scm
  78. +2
    -2
      gnu/packages/gtk.scm
  79. +6
    -6
      gnu/packages/guile-xyz.scm
  80. +1
    -1
      gnu/packages/guile.scm
  81. +2
    -2
      gnu/packages/hardware.scm
  82. +2
    -2
      gnu/packages/haskell-apps.scm
  83. +1
    -1
      gnu/packages/haskell-xyz.scm
  84. +1
    -1
      gnu/packages/hexedit.scm
  85. +1
    -1
      gnu/packages/i2p.scm
  86. +25
    -25
      gnu/packages/ibus.scm
  87. +4
    -4
      gnu/packages/image-processing.scm
  88. +4
    -4
      gnu/packages/image-viewers.scm
  89. +11
    -11
      gnu/packages/image.scm
  90. +3
    -3
      gnu/packages/ipfs.scm
  91. +1
    -1
      gnu/packages/java-graphics.scm
  92. +1
    -1
      gnu/packages/java-maths.scm
  93. +10
    -10
      gnu/packages/java.scm
  94. +2
    -2
      gnu/packages/javascript.scm
  95. +1
    -1
      gnu/packages/jrnl.scm
  96. +2
    -2
      gnu/packages/julia.scm
  97. +1
    -1
      gnu/packages/jupyter.scm
  98. +5
    -5
      gnu/packages/kodi.scm
  99. +1
    -1
      gnu/packages/language.scm
  100. +1
    -1
      gnu/packages/lego.scm

+ 2
- 2
gnu/packages/ada.scm View File

@ -38,7 +38,7 @@
(source (origin
(method git-fetch)
(uri (git-reference
(url "https://github.com/AdaCore/langkit.git")
(url "https://github.com/AdaCore/langkit")
(commit commit)))
(sha256
(base32
@ -70,7 +70,7 @@ Ada library with bindings for the C and Python programming languages.")
(source (origin
(method git-fetch)
(uri (git-reference
(url "https://github.com/AdaCore/libadalang.git")
(url "https://github.com/AdaCore/libadalang")
(commit commit)))
(sha256
(base32


+ 20
- 20
gnu/packages/admin.scm View File

@ -147,7 +147,7 @@
(method git-fetch)
(uri
(git-reference
(url "https://github.com/nomius/ktsuss.git")
(url "https://github.com/nomius/ktsuss")
(commit version)))
(sha256
(base32 "0q9931f9hp47v1n8scli4bdg2rkjpf5jf8v7jj2gdn83aia1r2hz"))
@ -220,7 +220,7 @@ usual file attributes can be checked for inconsistencies.")
(origin
(method git-fetch)
(uri (git-reference
(url "https://github.com/Xfennec/progress.git")
(url "https://github.com/Xfennec/progress")
(commit (string-append "v" version))))
(sha256
(base32 "1cnb4ixlhshn139mj5sr42k5m6gjjbyqvkn1324c47niwrgp7dqm"))
@ -1488,7 +1488,7 @@ commands and their arguments.")
(source (origin
(method git-fetch)
(uri (git-reference
(url "https://github.com/Duncaen/OpenDoas.git")
(url "https://github.com/Duncaen/OpenDoas")
(commit (string-append "v" version))))
(file-name (git-file-name name version))
(sha256
@ -1916,7 +1916,7 @@ system is under heavy load.")
(source (origin
(method git-fetch)
(uri (git-reference
(url "https://github.com/dharple/detox.git")
(url "https://github.com/dharple/detox")
(commit (string-append "v" version))))
(file-name (git-file-name name version))
(sha256
@ -2106,7 +2106,7 @@ degradation and failure.")
(origin
(method git-fetch)
(uri (git-reference
(url "https://github.com/adrianlopezroche/fdupes.git")
(url "https://github.com/adrianlopezroche/fdupes")
(commit (string-append "v" version))))
(file-name (git-file-name name version))
(sha256
@ -2358,7 +2358,7 @@ lookup to YAML Mode. You could enable the mode with @code{(add-hook
(origin
(method git-fetch)
(uri (git-reference
(url "https://github.com/opsengine/cpulimit.git")
(url "https://github.com/opsengine/cpulimit")
(commit (string-append "v" version))))
(file-name (git-file-name name version))
(sha256
@ -2397,7 +2397,7 @@ limits.")
(origin
(method git-fetch)
(uri (git-reference
(url "https://github.com/wting/autojump.git")
(url "https://github.com/wting/autojump")
(commit (string-append "release-v" version))))
(file-name (git-file-name name version))
(sha256
@ -2443,7 +2443,7 @@ frequently used directories by typing only a small pattern.")
(source (origin
(method git-fetch)
(uri (git-reference
(url "https://github.com/clvv/fasd.git")
(url "https://github.com/clvv/fasd")
(commit version)))
(file-name (git-file-name name version))
(sha256
@ -2675,7 +2675,7 @@ results (ndiff), and a packet generation and response analysis tool (nping).")
(origin
(method git-fetch)
(uri (git-reference
(url "https://github.com/dagwieers/dstat.git")
(url "https://github.com/dagwieers/dstat")
(commit (string-append "v" version))))
(file-name (git-file-name "dstat" version))
(sha256
@ -2727,7 +2727,7 @@ throughput (in the same interval).")
(origin
(method git-fetch)
(uri (git-reference
(url "https://github.com/nvbn/thefuck.git")
(url "https://github.com/nvbn/thefuck")
(commit version)))
(file-name (git-file-name name version))
(sha256
@ -2803,7 +2803,7 @@ produce uniform output across heterogeneous networks.")
(origin
(method git-fetch)
(uri (git-reference
(url "https://github.com/valr/cbatticon.git")
(url "https://github.com/valr/cbatticon")
(commit version)))
(sha256
(base32 "0ivm2dzhsa9ir25ry418r2qg2llby9j7a6m3arbvq5c3kaj8m9jr"))
@ -2839,7 +2839,7 @@ the status of your battery in the system tray.")
(origin
(method git-fetch)
(uri (git-reference
(url "https://github.com/TrilbyWhite/interrobang.git")
(url "https://github.com/TrilbyWhite/interrobang")
(commit commit)))
(file-name (git-file-name name version))
(sha256
@ -2915,7 +2915,7 @@ Kerberos and Heimdal and FAST is supported with recent MIT Kerberos.")
(origin
(method git-fetch)
(uri (git-reference
(url "https://github.com/linux-sunxi/sunxi-tools.git")
(url "https://github.com/linux-sunxi/sunxi-tools")
(commit (string-append "v" version))))
(sha256
(base32 "04f3jqg8ww4jxsf9c6ddcdgy2xbhkyp0b3l5f1hvvbv94p81rjxd"))
@ -3020,7 +3020,7 @@ in order to be able to find it.
(origin
(method git-fetch)
(uri (git-reference
(url "https://github.com/aureliojargas/sedsed.git")
(url "https://github.com/aureliojargas/sedsed")
(commit (string-append "v" version))))
(file-name (git-file-name name version))
(sha256
@ -3423,7 +3423,7 @@ on systems running the Linux kernel.")
(origin
(method git-fetch)
(uri (git-reference
(url "https://github.com/robertdavidgraham/masscan.git")
(url "https://github.com/robertdavidgraham/masscan")
(commit version)))
(file-name (git-file-name name version))
(sha256
@ -3534,7 +3534,7 @@ launch daemons into the relevant nodes.")
;; We use git checkout to avoid github auto-generated tarballs
(method git-fetch)
(uri (git-reference
(url "https://github.com/hpc/Spindle.git")
(url "https://github.com/hpc/Spindle")
(commit (string-append "v" version))))
(file-name (git-file-name name version))
(sha256
@ -3745,7 +3745,7 @@ support forum. It runs with the @code{/exec} command in most IRC clients.")
(source (origin
(method git-fetch)
(uri (git-reference
(url "https://github.com/pwr/Solaar.git")
(url "https://github.com/pwr/Solaar")
(commit version)))
(file-name (git-file-name name version))
(sha256
@ -3958,7 +3958,7 @@ supplied by the user when logging in.")
(source (origin
(method git-fetch)
(uri (git-reference
(url "https://github.com/kellyjonbrazil/jc.git")
(url "https://github.com/kellyjonbrazil/jc")
(commit (string-append "v" version))))
(file-name (git-file-name name version))
(sha256
@ -3982,7 +3982,7 @@ file-types for easier parsing in scripts.")
(source (origin
(method git-fetch)
(uri (git-reference
(url "https://github.com/kellyjonbrazil/jtbl.git")
(url "https://github.com/kellyjonbrazil/jtbl")
(commit (string-append "v" version))))
(file-name (git-file-name name version))
(sha256
@ -4004,7 +4004,7 @@ text table representation to stdout.")
(source (origin
(method git-fetch)
(uri (git-reference
(url "https://github.com/xwmx/hosts.git")
(url "https://github.com/xwmx/hosts")
(commit version)))
(file-name (git-file-name name version))
(sha256


+ 2
- 2
gnu/packages/aidc.scm View File

@ -91,7 +91,7 @@ characters, and is highly robust.")
(origin
(method git-fetch)
(uri (git-reference
(url "https://github.com/dmtx/libdmtx.git")
(url "https://github.com/dmtx/libdmtx")
(commit (string-append "v" version))))
(file-name (git-file-name name version))
(sha256
@ -163,7 +163,7 @@ Python as well as GUI widgets for GTK and Qt.")
(source (origin
(method git-fetch)
(uri (git-reference
(url "https://github.com/nayuki/QR-Code-generator.git")
(url "https://github.com/nayuki/QR-Code-generator")
(commit (string-append "v" version))))
(file-name (git-file-name name version))
(patches (search-patches "qrcodegen-cpp-make-install.patch"))


+ 8
- 8
gnu/packages/algebra.scm View File

@ -155,7 +155,7 @@ line applications.")
(source (origin
(method git-fetch)
(uri (git-reference
(url "https://github.com/fplll/fplll.git")
(url "https://github.com/fplll/fplll")
(commit version)))
(file-name (git-file-name name version))
(sha256
@ -205,7 +205,7 @@ the real span of the lattice.")
;; Github instead.
(method git-fetch)
(uri (git-reference
(url "https://github.com/fplll/fpylll.git")
(url "https://github.com/fplll/fpylll")
(commit (string-append version "dev"))))
(file-name (git-file-name name version))
(sha256
@ -499,7 +499,7 @@ fast arithmetic.")
(source (origin
(method git-fetch)
(uri (git-reference
(url "https://github.com/fredrik-johansson/arb.git")
(url "https://github.com/fredrik-johansson/arb")
(commit version)))
(file-name (git-file-name name version))
(sha256
@ -544,7 +544,7 @@ real and complex numbers, with automatic, rigorous error control.")
(source (origin
(method git-fetch)
(uri (git-reference
(url "https://github.com/fredrik-johansson/python-flint.git")
(url "https://github.com/fredrik-johansson/python-flint")
(commit version)))
(file-name (git-file-name name version))
(sha256
@ -737,7 +737,7 @@ syntax is similar to that of C, so basic usage is familiar. It also includes
(source (origin
(method git-fetch)
(uri (git-reference
(url "https://github.com/extemporelang/kiss_fft.git")
(url "https://github.com/extemporelang/kiss_fft")
(commit version)))
(file-name (git-file-name name version))
(sha256
@ -843,7 +843,7 @@ cosine/ sine transforms or DCT/DST).")
(source (origin
(method git-fetch)
(uri (git-reference
(url "https://github.com/vkostyukov/la4j.git")
(url "https://github.com/vkostyukov/la4j")
(commit version)))
(file-name (string-append name "-" version "-checkout"))
(sha256
@ -965,7 +965,7 @@ algorithms from the FORTRAN library MINPACK.")
(origin
(method git-fetch)
(uri (git-reference
(url "https://github.com/symengine/symengine.git")
(url "https://github.com/symengine/symengine")
(commit (string-append "v" version))))
(file-name (git-file-name name version))
(sha256
@ -1084,7 +1084,7 @@ features, and more.")
(source (origin
(method git-fetch)
(uri (git-reference
(url "https://github.com/QuantStack/xtensor.git")
(url "https://github.com/QuantStack/xtensor")
(commit version)))
(sha256
(base32


+ 2
- 2
gnu/packages/android.scm View File

@ -65,7 +65,7 @@
(origin
(method git-fetch)
(uri (git-reference
(url "https://github.com/daym/android-make-stub.git")
(url "https://github.com/daym/android-make-stub")
(commit (string-append "v" version))))
(file-name (string-append "android-make-stub-"
version "-checkout"))
@ -99,7 +99,7 @@ use their packages mostly unmodified in our Android NDK build system.")
(origin
(method git-fetch)
(uri (git-reference
(url "https://github.com/google/googletest.git")
(url "https://github.com/google/googletest")
(commit (string-append "release-" version))))
(file-name (git-file-name name version))
(sha256


+ 1
- 1
gnu/packages/animation.scm View File

@ -201,7 +201,7 @@ contains the graphical user interface for synfig.")
(source (origin
(method git-fetch)
(uri (git-reference
(url "https://github.com/LostMoho/Papagayo.git")
(url "https://github.com/LostMoho/Papagayo")
(commit commit)))
(file-name (git-file-name name version))
(sha256


+ 3
- 3
gnu/packages/arcan.scm View File

@ -59,7 +59,7 @@
(method git-fetch)
(file-name (git-file-name name version))
(uri (git-reference
(url "https://github.com/letoram/arcan.git")
(url "https://github.com/letoram/arcan")
(commit commit)))
(sha256
(base32 "1pd0avlzc2rig1hd37zbhc7r2s6fjzdhshfg9l9cfzibl7caclyw"))))
@ -145,7 +145,7 @@
(method git-fetch)
(file-name "arcan-openal-0.5.4")
(uri (git-reference
(url "https://github.com/letoram/openal.git")
(url "https://github.com/letoram/openal")
(commit "1c7302c580964fee9ee9e1d89ff56d24f934bdef")))
(sha256
(base32
@ -195,7 +195,7 @@ engine programmable using Lua.")
(method git-fetch)
(file-name (git-file-name name version))
(uri (git-reference
(url "https://github.com/letoram/xarcan.git")
(url "https://github.com/letoram/xarcan")
(commit commit)))
(sha256
(base32 "0zng7cs6733mnf0p6g5wv02981f2sf567n56csax6cmzb8fpamym"))))


+ 3
- 3
gnu/packages/assembly.scm View File

@ -263,7 +263,7 @@ runtime")
(source (origin
(method git-fetch)
(uri (git-reference
(url "https://github.com/rednex/rgbds.git")
(url "https://github.com/rednex/rgbds")
(commit (string-append "v" version))))
(file-name (git-file-name name version))
(sha256
@ -310,7 +310,7 @@ package for the Game Boy and Game Boy Color. It consists of:
(source (origin
(method git-fetch)
(uri (git-reference
(url "https://github.com/vhelin/wla-dx.git")
(url "https://github.com/vhelin/wla-dx")
(commit (string-append "v" version))))
(file-name (git-file-name name version))
(sha256
@ -380,7 +380,7 @@ as 6502A, 6504, 6507, 6510, 7501, 8500, 8501, 8502 ...),
(origin
(method git-fetch)
(uri (git-reference
(url "https://github.com/Kingcom/armips.git")
(url "https://github.com/Kingcom/armips")
(commit (string-append "v" version))))
(file-name (git-file-name name version))
(sha256


+ 24
- 24
gnu/packages/audio.scm View File

@ -400,7 +400,7 @@ engineers, musicians, soundtrack editors and composers.")
(origin
(method git-fetch)
(uri (git-reference
(url "https://github.com/audacity/audacity.git")
(url "https://github.com/audacity/audacity")
(commit (string-append "Audacity-" version))))
(file-name (git-file-name name version))
(sha256
@ -718,7 +718,7 @@ tools (analyzer, mono/stereo tools, crossovers).")
;; Actually https://github.com/moddevices/caps-lv2.git, but it's
;; missing fixes for newer glibc, so using the origin of a pull
;; request regarding this issue:
(url "https://github.com/jujudusud/caps-lv2.git")
(url "https://github.com/jujudusud/caps-lv2")
(commit "9c9478b7fbd8f9714f552ebe2a6866398b0babfb")))
(file-name (git-file-name name version))
(sha256
@ -754,7 +754,7 @@ generators of mostly elementary and occasionally exotic nature.")
(source (origin
(method git-fetch)
(uri (git-reference
(url "https://github.com/ssj71/infamousPlugins.git")
(url "https://github.com/ssj71/infamousPlugins")
(commit (string-append "v" version))))
(file-name (git-file-name name version))
(sha256
@ -793,7 +793,7 @@ envelope follower, distortion effects, tape effects and more.")
(source (origin
(method git-fetch)
(uri (git-reference
(url "https://github.com/swh/ladspa.git")
(url "https://github.com/swh/ladspa")
(commit (string-append "v" version))))
(file-name (git-file-name name version))
(sha256
@ -823,7 +823,7 @@ envelope follower, distortion effects, tape effects and more.")
(source (origin
(method git-fetch)
(uri (git-reference
(url "https://github.com/swh/lv2.git")
(url "https://github.com/swh/lv2")
(commit (string-append "v" version))))
(file-name (git-file-name name version))
(sha256
@ -869,7 +869,7 @@ emulation (valve, tape), bit fiddling (decimator, pointer-cast), etc.")
(origin
(method git-fetch)
(uri (git-reference
(url "https://github.com/csound/csound.git")
(url "https://github.com/csound/csound")
(commit version)))
(file-name (git-file-name name version))
(sha256
@ -1259,7 +1259,7 @@ follower.")
(source (origin
(method git-fetch)
(uri (git-reference
(url "https://github.com/FluidSynth/fluidsynth.git")
(url "https://github.com/FluidSynth/fluidsynth")
(commit (string-append "v" version))))
(file-name (git-file-name name version))
(sha256
@ -1339,7 +1339,7 @@ PS, and DAB+.")
(source (origin
(method git-fetch)
(uri (git-reference
(url "https://github.com/grame-cncm/faust.git")
(url "https://github.com/grame-cncm/faust")
(commit (string-append "v"
(string-map (lambda (c)
(if (char=? c #\.) #\- c))
@ -2100,7 +2100,7 @@ software.")
(source (origin
(method git-fetch)
(uri (git-reference
(url "https://github.com/lvtk/lvtk.git")
(url "https://github.com/lvtk/lvtk")
(commit version)))
(file-name (git-file-name name version))
(sha256
@ -2302,7 +2302,7 @@ into various outputs and to start, stop and configure jackd")
(source (origin
(method git-fetch)
(uri (git-reference
(url "https://github.com/orouits/qjackrcd.git")
(url "https://github.com/orouits/qjackrcd")
(commit (string-append "v" version))))
(file-name (git-file-name name version))
(sha256
@ -2337,7 +2337,7 @@ background file post-processing.")
(source (origin
(method git-fetch)
(uri (git-reference
(url "https://github.com/supercollider/supercollider.git")
(url "https://github.com/supercollider/supercollider")
(commit (string-append "Version-" version))
;; for nova-simd, nova-tt, hidapi, TLSF, oscpack
(recursive? #t)))
@ -3084,7 +3084,7 @@ synthesizer written in C++.")
(origin
(method git-fetch)
(uri (git-reference
(url "https://github.com/Themaister/RSound.git")
(url "https://github.com/Themaister/RSound")
(commit (string-append "v" version))))
(file-name (git-file-name name version))
(sha256
@ -3123,7 +3123,7 @@ with a much different focus than most other audio daemons.")
(source (origin
(method git-fetch)
(uri (git-reference
(url "https://github.com/johnhldavis/xjackfreak.git")
(url "https://github.com/johnhldavis/xjackfreak")
(commit (string-append "v" version))))
(file-name (git-file-name name version))
(sha256
@ -3308,7 +3308,7 @@ point audio data.")
(source (origin
(method git-fetch)
(uri (git-reference
(url "https://github.com/svend/cuetools.git")
(url "https://github.com/svend/cuetools")
(commit version)))
(file-name (git-file-name name version))
(sha256
@ -3358,7 +3358,7 @@ use them split WAVE data into multiple files.")
(source (origin
(method git-fetch)
(uri (git-reference
(url "https://github.com/foo86/dcadec.git")
(url "https://github.com/foo86/dcadec")
(commit (string-append "v" version))))
(file-name (git-file-name name version))
(sha256
@ -3436,7 +3436,7 @@ loudness of audio and video files to the same level.")
(origin
(method git-fetch)
(uri (git-reference
(url "https://github.com/irungentoo/filter_audio.git")
(url "https://github.com/irungentoo/filter_audio")
(commit commit)))
(file-name (string-append name "-" version "-checkout"))
(sha256
@ -3545,7 +3545,7 @@ mixers.")
;; bootstrapped build system.
(method git-fetch)
(uri (git-reference
(url "https://github.com/Arkq/bluez-alsa.git")
(url "https://github.com/Arkq/bluez-alsa")
(commit (string-append "v" version))))
(file-name (git-file-name name version))
(sha256
@ -3654,7 +3654,7 @@ the Snd sources), Ruby, or Forth.")
(source (origin
(method git-fetch)
(uri (git-reference
(url "https://github.com/lucianodato/noise-repellent.git")
(url "https://github.com/lucianodato/noise-repellent")
(commit version)))
(file-name (string-append name "-" version "-checkout"))
(sha256
@ -3699,7 +3699,7 @@ the following features:
(origin
(method git-fetch)
(uri (git-reference
(url "https://github.com/dpayne/cli-visualizer.git")
(url "https://github.com/dpayne/cli-visualizer")
(commit (string-append "v" version))))
(file-name (git-file-name name version))
(sha256
@ -3744,7 +3744,7 @@ representations.")
(source (origin
(method git-fetch)
(uri (git-reference
(url "https://github.com/karlstav/cava.git")
(url "https://github.com/karlstav/cava")
(commit version)))
(file-name (git-file-name name version))
(sha256
@ -3897,7 +3897,7 @@ library.")
(origin
(method git-fetch)
(uri (git-reference
(url "https://github.com/FNA-XNA/FAudio.git")
(url "https://github.com/FNA-XNA/FAudio")
(commit version)))
(file-name (git-file-name name version))
(sha256
@ -4040,7 +4040,7 @@ as is the case with audio plugins.")
(method git-fetch)
(uri
(git-reference
(url "https://github.com/falkTX/Carla.git")
(url "https://github.com/falkTX/Carla")
(commit (string-append "v" version))))
(file-name (git-file-name name version))
(sha256
@ -4291,7 +4291,7 @@ minimum.")
(origin
(method git-fetch)
(uri (git-reference
(url "https://github.com/drowe67/codec2.git")
(url "https://github.com/drowe67/codec2")
(commit (string-append "v" version))))
(file-name (git-file-name name version))
(sha256
@ -4324,7 +4324,7 @@ digital radio.")
(source (origin
(method git-fetch)
(uri (git-reference
(url "https://github.com/Ableton/link.git")
(url "https://github.com/Ableton/link")
(commit (string-append "Link-" version))))
(file-name (git-file-name name version))
(sha256


+ 1
- 1
gnu/packages/authentication.scm View File

@ -101,7 +101,7 @@ and the time-based @dfn{TOTP} algorithm (RFC6238).")
(source (origin
(method git-fetch)
(uri (git-reference
(url "https://github.com/Yubico/yubico-pam.git")
(url "https://github.com/Yubico/yubico-pam")
(commit commit)))
(file-name (git-file-name name version))
(sha256


+ 1
- 1
gnu/packages/avr.scm View File

@ -176,7 +176,7 @@ C++.")
(origin
(method git-fetch)
(uri (git-reference
(url "https://github.com/ryansuchocki/microscheme.git")
(url "https://github.com/ryansuchocki/microscheme")
(commit (string-append "v" version))))
(sha256
(base32 "1r3ng4pw1s9yy1h5rafra1rq19d3vmb5pzbpcz1913wz22qdd976"))


+ 3
- 3
gnu/packages/axoloti.scm View File

@ -71,7 +71,7 @@
(origin
(method git-fetch)
(uri (git-reference
(url "https://github.com/axoloti/axoloti.git")
(url "https://github.com/axoloti/axoloti")
(commit version)))
(file-name (git-file-name name version))
(sha256
@ -367,7 +367,7 @@ patcher application.")))
(origin
(method git-fetch)
(uri (git-reference
(url "https://github.com/axoloti/axoloti.git")
(url "https://github.com/axoloti/axoloti")
(commit version)))
(file-name (git-file-name name version))
(sha256
@ -607,7 +607,7 @@ patcher application.")))
(origin
(method git-fetch)
(uri (git-reference
(url "https://github.com/JohannesTaelman/elfloader.git")
(url "https://github.com/JohannesTaelman/elfloader")
(commit commit)))
(file-name (git-file-name "elfloader" commit))
(sha256


+ 3
- 3
gnu/packages/backup.scm View File

@ -146,7 +146,7 @@ spying and/or modification by the server.")
(source (origin
(method git-fetch)
(uri (git-reference
(url "https://github.com/Parchive/par2cmdline.git")
(url "https://github.com/Parchive/par2cmdline")
(commit (string-append "v" version))))
(file-name (git-file-name name version))
(sha256
@ -310,7 +310,7 @@ random access nor for in-place modification.")
(origin
(method git-fetch)
(uri (git-reference
(url "https://github.com/miekg/rdup.git")
(url "https://github.com/miekg/rdup")
(commit version)))
(file-name (git-file-name name version))
(sha256
@ -999,7 +999,7 @@ precious backup space.
(origin
(method git-fetch)
(uri (git-reference
(url "https://github.com/zbackup/zbackup.git")
(url "https://github.com/zbackup/zbackup")
(commit version)))
(file-name (git-file-name name version))
(sha256


+ 2
- 2
gnu/packages/bash.scm View File

@ -330,7 +330,7 @@ completion for many common commands.")
(origin
(method git-fetch)
(uri (git-reference
(url "https://github.com/illusori/bash-tap.git")
(url "https://github.com/illusori/bash-tap")
(commit version)))
(file-name (git-file-name name version))
(sha256
@ -373,7 +373,7 @@ capturing.")
(source (origin
(method git-fetch)
(uri (git-reference
(url "https://github.com/bats-core/bats-core.git")
(url "https://github.com/bats-core/bats-core")
(commit (string-append "v" version))))
(file-name (git-file-name name version))
(sha256


+ 2
- 2
gnu/packages/benchmark.scm View File

@ -131,7 +131,7 @@ is to write a job file matching the I/O load one wants to simulate.")
(source (origin
(method git-fetch)
(uri (git-reference
(url "https://github.com/intel/mpi-benchmarks.git")
(url "https://github.com/intel/mpi-benchmarks")
(commit (string-append "IMB-v" version))))
(file-name (git-file-name name version))
(sha256
@ -217,7 +217,7 @@ This can give a much better understanding of the command's performance.")
(source (origin
(method git-fetch)
(uri (git-reference
(url "https://github.com/google/benchmark.git")
(url "https://github.com/google/benchmark")
(commit (string-append "v" version))))
(file-name (git-file-name name version))
(sha256


+ 3
- 3
gnu/packages/bioconductor.scm View File

@ -2934,7 +2934,7 @@ qPCR data, but could be used with other types as well.")
(origin
(method git-fetch)
(uri (git-reference
(url "https://github.com/cole-trapnell-lab/monocle3.git")
(url "https://github.com/cole-trapnell-lab/monocle3")
(commit version)))
(file-name (git-file-name name version))
(sha256
@ -6509,7 +6509,7 @@ accessibility data.")
(origin
(method git-fetch)
(uri (git-reference
(url "https://github.com/cole-trapnell-lab/cicero-release.git")
(url "https://github.com/cole-trapnell-lab/cicero-release")
(commit commit)))
(file-name (git-file-name name version))
(sha256
@ -6530,7 +6530,7 @@ accessibility data.")
(origin
(method git-fetch)
(uri (git-reference
(url "https://github.com/aertslab/cisTopic.git")
(url "https://github.com/aertslab/cisTopic")
(commit commit)))
(file-name (git-file-name name version))
(sha256


+ 116
- 116
gnu/packages/bioinformatics.scm View File

@ -189,7 +189,7 @@ structure of the predicted RNA.")
(method git-fetch)
;; BamM is not available on pypi.
(uri (git-reference
(url "https://github.com/Ecogenomics/BamM.git")
(url "https://github.com/Ecogenomics/BamM")
(commit version)
(recursive? #t)))
(file-name (git-file-name name version))
@ -283,7 +283,7 @@ instance, it implements several methods to assess contig-wise read coverage.")
(source (origin
(method git-fetch)
(uri (git-reference
(url "https://github.com/pezmaster31/bamtools.git")
(url "https://github.com/pezmaster31/bamtools")
(commit (string-append "v" version))))
(file-name (git-file-name name version))
(sha256
@ -361,7 +361,7 @@ transparently with both VCFs and BCFs, both uncompressed and BGZF-compressed.")
(source (origin
(method git-fetch)
(uri (git-reference
(url "https://github.com/bedops/bedops.git")
(url "https://github.com/bedops/bedops")
(commit (string-append "v" version))))
(file-name (git-file-name name version))
(sha256
@ -484,7 +484,7 @@ BED, GFF/GTF, VCF.")
(source (origin
(method git-fetch)
(uri (git-reference
(url "https://github.com/PacificBiosciences/pbbam.git")
(url "https://github.com/PacificBiosciences/pbbam")
(commit version)))
(file-name (git-file-name name version))
(sha256
@ -540,7 +540,7 @@ Non-PacBio BAMs will cause exceptions to be thrown.")
(source (origin
(method git-fetch)
(uri (git-reference
(url "https://github.com/PacificBiosciences/blasr_libcpp.git")
(url "https://github.com/PacificBiosciences/blasr_libcpp")
(commit version)))
(file-name (git-file-name name version))
(sha256
@ -602,7 +602,7 @@ hdf and alignment.")
(source (origin
(method git-fetch)
(uri (git-reference
(url "https://github.com/PacificBiosciences/blasr.git")
(url "https://github.com/PacificBiosciences/blasr")
(commit version)))
(file-name (git-file-name name version))
(sha256
@ -693,7 +693,7 @@ provides the Ribotaper pipeline.")
(origin
(method git-fetch)
(uri (git-reference
(url "https://github.com/ratschlab/RiboDiff.git")
(url "https://github.com/ratschlab/RiboDiff")
(commit (string-append "v" version))))
(file-name (git-file-name name version))
(sha256
@ -737,7 +737,7 @@ independently with transcriptional regulation.")
(source (origin
(method git-fetch)
(uri (git-reference
(url "https://github.com/lh3/bioawk.git")
(url "https://github.com/lh3/bioawk")
(commit (string-append "v" version))))
(file-name (git-file-name name version))
(sha256
@ -900,7 +900,7 @@ Python.")
;; Use GitHub as source because PyPI distribution does not contain
;; test data: https://github.com/biocore/biom-format/issues/693
(uri (git-reference
(url "https://github.com/biocore/biom-format.git")
(url "https://github.com/biocore/biom-format")
(commit version)))
(file-name (git-file-name name version))
(sha256
@ -1567,7 +1567,7 @@ errors at the end of reads.")
(source (origin
(method git-fetch)
(uri (git-reference
(url "https://github.com/BenLangmead/bowtie2.git")
(url "https://github.com/BenLangmead/bowtie2")
(commit (string-append "v" version))))
(file-name (git-file-name name version))
(sha256
@ -1783,7 +1783,7 @@ and more accurate. BWA-MEM also has better performance than BWA-backtrack for
(source (origin
(method git-fetch)
(uri (git-reference
(url "https://github.com/pkerpedjiev/bwa-pssm.git")
(url "https://github.com/pkerpedjiev/bwa-pssm")
(commit version)))
(file-name (git-file-name name version))
(sha256
@ -1813,7 +1813,7 @@ well as many of the command line options.")
(source (origin
(method git-fetch)
(uri (git-reference
(url "https://github.com/brentp/bwa-meth.git")
(url "https://github.com/brentp/bwa-meth")
(commit (string-append "v" version))))
(file-name (git-file-name name version))
(sha256
@ -1887,7 +1887,7 @@ multiple sequence alignments.")
(method git-fetch)
;; Test data is missing on PyPi.
(uri (git-reference
(url "https://github.com/pysam-developers/pysam.git")
(url "https://github.com/pysam-developers/pysam")
(commit (string-append "v" version))))
(file-name (git-file-name name version))
(sha256
@ -2036,7 +2036,7 @@ high-throughput sequencing data – with an emphasis on simplicity.")
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(uri (git-reference
(url "https://github.com/mhammell-laboratory/tetoolkit.git")
(url "https://github.com/mhammell-laboratory/tetoolkit")
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@ -2153,7 +2153,7 @@ databases.")
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(url "https://github.com/YeoLab/clipper.git")
(url "https://github.com/YeoLab/clipper")
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@ -2412,7 +2412,7 @@ interval trees with associated meta-data. It is primarily used by the
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(url "https://github.com/deeptools/deepTools.git")
(url "https://github.com/deeptools/deepTools")
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@ -2480,7 +2480,7 @@ other types of unwanted sequence from high-throughput sequencing reads.")
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(uri (git-reference
(url "https://github.com/dpryan79/libBigWig.git")
(url "https://github.com/dpryan79/libBigWig")
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@ -2560,7 +2560,7 @@ accessing bigWig files.")
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;; Source from GitHub so that tests are included.
(uri (git-reference
(url "https://github.com/jeetsukumaran/DendroPy.git")
(url "https://github.com/jeetsukumaran/DendroPy")
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@ -2618,7 +2618,7 @@ with Python.")
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(url "https://github.com/dellytools/delly")
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@ -2665,7 +2665,7 @@ accurately delineate genomic rearrangements throughout the genome.")
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(url "https://github.com/bbuchfink/diamond")
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@ -2700,7 +2700,7 @@ data and settings.")
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(url "https://github.com/maaskola/discrover")
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@ -2773,7 +2773,7 @@ of nucleic acid binding proteins.")
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@ -3021,7 +3021,7 @@ dynamic programming or a variety of heuristics.")
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(url "https://github.com/adarob/eXpress")
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@ -3072,7 +3072,7 @@ ChIP-Seq, and analysis of metagenomic data.")
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@ -3199,7 +3199,7 @@ results. The FASTX-Toolkit tools perform some of these preprocessing tasks.")
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(url "https://github.com/seqan/flexbar")
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@ -3342,7 +3342,7 @@ genes in incomplete assemblies or complete genomes.")
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@ -3378,7 +3378,7 @@ genes in incomplete assemblies or complete genomes.")
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@ -3405,7 +3405,7 @@ comment or quality sections.")
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@ -3465,7 +3465,7 @@ association studies (GWAS).")
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(url "https://github.com/nboley/grit")
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@ -3690,7 +3690,7 @@ from high-throughput sequencing assays.")
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(url "https://github.com/samtools/htsjdk")
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@ -3740,7 +3740,7 @@ manipulating HTS data.")
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(url "https://github.com/samtools/htsjdk")
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@ -3784,7 +3784,7 @@ manipulating HTS data.")
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@ -3812,7 +3812,7 @@ manipulating HTS data.")
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(url "https://github.com/broadinstitute/picard")
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@ -3891,7 +3891,7 @@ VCF.")
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(url "https://github.com/broadinstitute/picard")
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@ -3981,7 +3981,7 @@ VCF.")
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(url "https://github.com/broadinstitute/picard")
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@ -4178,7 +4178,7 @@ The main functions of FastQC are:
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@ -4258,7 +4258,7 @@ data. It also provides the @command{bgzip}, @command{htsfile}, and
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@ -4349,7 +4349,7 @@ command, or queried for specific k-mers with @code{jellyfish query}.")
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@ -4457,7 +4457,7 @@ experiments.")
;; The PyPi tarball does not contain tests.
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@ -4580,7 +4580,7 @@ sequences).")
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(url "https://github.com/marbl/mash")
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@ -4719,7 +4719,7 @@ probabilistic distances of genome abundance and tetranucleotide frequency.")
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@ -4861,7 +4861,7 @@ program for nucleotide and protein sequences.")
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@ -4999,7 +4999,7 @@ the phenotype as it models the data.")
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(url "https://github.com/PacificBiosciences/cDNA_primer")
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@ -5220,7 +5220,7 @@ different command-line tools:
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@ -5369,7 +5369,7 @@ extremely diverse sets of genomes.")
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