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Commit 49575178 authored by Blaise Li's avatar Blaise Li
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Using auto-cythonizing pybedtools.

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bam25prime @ 0ec6a306
Subproject commit 0467802954cef4c07a1adfc4b9692bd9fdd6f792 Subproject commit 0ec6a30646ddb06a6ff0bb91314515f029415985
libhts @ fbbe4ad3
Subproject commit 6666fe7b98ac7538d2c524257892c3930eb34f52 Subproject commit fbbe4ad34d94a039b7fdb01f32877c6d5d66512a
small_RNA-seq/requirements.txt
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...@@ -15,7 +15,8 @@ libworkflows @ git+https://bioinfo_utils:tfuTQsSZWMtC5xXJNFJh@gitlab.pasteur.fr/ ...@@ -15,7 +15,8 @@ libworkflows @ git+https://bioinfo_utils:tfuTQsSZWMtC5xXJNFJh@gitlab.pasteur.fr/
snakemake_wrappers @ git+https://bioinfo_utils:Ues9rP1tyfzs1zs5BzpY@gitlab.pasteur.fr/bli/snakemake_wrappers.git snakemake_wrappers @ git+https://bioinfo_utils:Ues9rP1tyfzs1zs5BzpY@gitlab.pasteur.fr/bli/snakemake_wrappers.git
rpy2 rpy2
# extra dependencies for the sRNA-seq annotation script small_RNA_seq_annotate.py # extra dependencies for the sRNA-seq annotation script small_RNA_seq_annotate.py
pybedtools @ git+https://github.com/blaiseli/pybedtools.git@fix_missing_headers --global-option="cythonize" # pybedtools @ git+https://github.com/blaiseli/pybedtools.git@fix_missing_headers --global-option="cythonize"
pybedtools @ git+https://github.com/blaiseli/pybedtools.git@auto_cythonize
# pybedtools # pybedtools
pysam pysam
paraccumulators @ git+https://bioinfo_utils:EfTj-nvWDN84ZF_UzWPx@gitlab.pasteur.fr/bli/paraccumulators.git paraccumulators @ git+https://bioinfo_utils:EfTj-nvWDN84ZF_UzWPx@gitlab.pasteur.fr/bli/paraccumulators.git
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