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path: root/gnu/packages/patches/pigx-scrnaseq-no-citeproc.patch
blob: 4cce33fb01e87d6fd4500d78b660cb4b436df438 (about) (plain)
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diff -Naur pigx_scrnaseq-1.1.7/configure.ac pigx_scrnaseq-1.1.7.patched/configure.ac
--- pigx_scrnaseq-1.1.7/configure.ac	2020-03-17 14:37:46.000000000 +0100
+++ pigx_scrnaseq-1.1.7.patched/configure.ac	2021-10-06 13:55:49.779271317 +0200
@@ -43,7 +43,6 @@
 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([FASTQC],          [fastqc])
 find_or_override_prog([STAR],            [STAR])
 find_or_override_prog([SAMTOOLS],        [samtools])
diff -Naur pigx_scrnaseq-1.1.7/Makefile.in pigx_scrnaseq-1.1.7.patched/Makefile.in
--- pigx_scrnaseq-1.1.7/Makefile.in	2020-11-30 16:55:48.000000000 +0100
+++ pigx_scrnaseq-1.1.7.patched/Makefile.in	2021-10-06 13:55:52.224340194 +0200
@@ -395,7 +395,6 @@
 PACKAGE_URL = @PACKAGE_URL@
 PACKAGE_VERSION = @PACKAGE_VERSION@
 PANDOC = @PANDOC@
-PANDOC_CITEPROC = @PANDOC_CITEPROC@
 PATH_SEPARATOR = @PATH_SEPARATOR@
 PERL = @PERL@
 PYTHON = @PYTHON@
diff -Naur pigx_scrnaseq-1.1.7/pigx-scrnaseq.in pigx_scrnaseq-1.1.7.patched/pigx-scrnaseq.in
--- pigx_scrnaseq-1.1.7/pigx-scrnaseq.in	2020-11-30 16:08:55.000000000 +0100
+++ pigx_scrnaseq-1.1.7.patched/pigx-scrnaseq.in	2021-10-06 13:55:47.889218079 +0200
@@ -274,7 +274,6 @@
     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']