diff options
| author | Maxim Cournoyer <[email protected]> | 2022-01-25 22:07:13 -0500 |
|---|---|---|
| committer | Maxim Cournoyer <[email protected]> | 2022-01-25 22:07:13 -0500 |
| commit | 1a5302435ff0d2822b823f5a6fe01faa7a85c629 (patch) | |
| tree | ac7810c88b560532f22d2bab2e59609cd7305c21 /gnu/packages/patches/pigx-rnaseq-no-citeproc.patch | |
| parent | 3ff2ac4980dacf10087e4b42bd9fbc490591900c (diff) | |
| parent | 070b8a893febd6e7d8b2b7c8c4dcebacf7845aa9 (diff) | |
Merge branch 'master' into staging.
With "conflicts" solved (all in favor of master except git) in:
gnu/local.mk
gnu/packages/databases.scm
gnu/packages/glib.scm
gnu/packages/gnome.scm
gnu/packages/gnupg.scm
gnu/packages/gnuzilla.scm
gnu/packages/graphics.scm
gnu/packages/gstreamer.scm
gnu/packages/gtk.scm
gnu/packages/linux.scm
gnu/packages/machine-learning.scm
gnu/packages/networking.scm
gnu/packages/polkit.scm
gnu/packages/pulseaudio.scm
gnu/packages/rpc.scm
gnu/packages/rust.scm
gnu/packages/version-control.scm
gnu/packages/w3m.scm
Diffstat (limited to 'gnu/packages/patches/pigx-rnaseq-no-citeproc.patch')
| -rw-r--r-- | gnu/packages/patches/pigx-rnaseq-no-citeproc.patch | 33 |
1 files changed, 33 insertions, 0 deletions
diff --git a/gnu/packages/patches/pigx-rnaseq-no-citeproc.patch b/gnu/packages/patches/pigx-rnaseq-no-citeproc.patch new file mode 100644 index 0000000000..366ae3890a --- /dev/null +++ b/gnu/packages/patches/pigx-rnaseq-no-citeproc.patch @@ -0,0 +1,33 @@ +diff -Naur pigx_rnaseq-0.0.19/configure.ac pigx_rnaseq-0.0.19.patched/configure.ac +--- pigx_rnaseq-0.0.19/configure.ac 2021-07-23 14:01:00.304391428 +0200 ++++ pigx_rnaseq-0.0.19.patched/configure.ac 2021-10-06 13:51:29.512960106 +0200 +@@ -38,7 +38,6 @@ + find_or_override_prog([GNUBASH], [bash]) + find_or_override_prog([SNAKEMAKE], [snakemake]) + find_or_override_prog([PANDOC], [pandoc]) +-find_or_override_prog([PANDOC_CITEPROC], [pandoc-citeproc]) + find_or_override_prog([STAR], [STAR]) + find_or_override_prog([HISAT2], [hisat2]) + find_or_override_prog([HISAT2_BUILD], [hisat2-build]) +diff -Naur pigx_rnaseq-0.0.19/Makefile.in pigx_rnaseq-0.0.19.patched/Makefile.in +--- pigx_rnaseq-0.0.19/Makefile.in 2021-08-13 13:40:10.402922844 +0200 ++++ pigx_rnaseq-0.0.19.patched/Makefile.in 2021-10-06 13:51:04.052247524 +0200 +@@ -410,7 +410,6 @@ + PACKAGE_URL = @PACKAGE_URL@ + PACKAGE_VERSION = @PACKAGE_VERSION@ + PANDOC = @PANDOC@ +-PANDOC_CITEPROC = @PANDOC_CITEPROC@ + PATH_SEPARATOR = @PATH_SEPARATOR@ + PYTHON = @PYTHON@ + PYTHONPATH = @PYTHONPATH@ +diff -Naur pigx_rnaseq-0.0.19/pigx-common/common/pigx-runner.in pigx_rnaseq-0.0.19.patched/pigx-common/common/pigx-runner.in +--- pigx_rnaseq-0.0.19/pigx-common/common/pigx-runner.in 2021-08-13 13:27:50.494352532 +0200 ++++ pigx_rnaseq-0.0.19.patched/pigx-common/common/pigx-runner.in 2021-10-06 13:51:38.798220108 +0200 +@@ -379,7 +379,6 @@ + if path.exists(bin): shutil.rmtree(bin) + os.makedirs(bin, exist_ok=True) + os.symlink('@PANDOC@', path.join(bin, "pandoc")) +- os.symlink('@PANDOC_CITEPROC@', path.join(bin, "pandoc-citeproc")) + os.symlink('@RSCRIPT@', path.join(bin, "Rscript")) + os.environ['PATH'] = path.abspath(bin) + ":" + os.environ['PATH'] + os.environ['PIGX_PATH'] = path.abspath(bin) + ":" + os.environ['PATH'] |