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']