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Blaise LI
libhts
Commits
1e705417
Commit
1e705417
authored
Feb 11, 2021
by
Blaise Li
Browse files
BamFile changed methods name.
parent
711099aa
Changes
3
Hide whitespace changes
Inline
Side-by-side
requirements.txt
View file @
1e705417
Cython
libbamutils
@
git+https://gitlab.pasteur.fr/bli/libbamutils.git@
66879fb7e917dfa00e13da230310bb3b257766db
libbamutils
@
git+https://gitlab.pasteur.fr/bli/libbamutils.git@
a63cb65c3a078b6a5802a74df541da22bbc71c5c
libworkflows
@
git+https://gitlab.pasteur.fr/bli/libworkflows.git@b29b854ff1db6c87386007808286207b8af11b9d
matplotlib
networkx
...
...
scripts/bed_bam2fq.py
View file @
1e705417
...
...
@@ -47,7 +47,7 @@ def main():
args
=
parser
.
parse_args
()
bamfile
=
BamFile
(
args
.
bamfile
)
for
fastq
in
bamfile
.
bed_to_fastq
(
args
.
bedfile
):
for
fastq
in
bamfile
.
bed
file
_to_fastq
(
args
.
bedfile
):
print
(
fastq
,
end
=
""
)
return
0
...
...
setup.py
View file @
1e705417
...
...
@@ -38,7 +38,7 @@ setup(
"scripts/copypaste_bigwig_regions.py"
,
"scripts/extract_annot_start.py"
],
install_requires
=
[
"libbamutils @ git+https://gitlab.pasteur.fr/bli/libbamutils.git@
66879fb7e917dfa00e13da230310bb3b257766db
"
,
"libbamutils @ git+https://gitlab.pasteur.fr/bli/libbamutils.git@
a63cb65c3a078b6a5802a74df541da22bbc71c5c
"
,
#"libworkflows @ git+https://gitlab+deploy-token-31:isEzpsgbNf2sJMdUDy2g@gitlab.pasteur.fr/bli/libworkflows.git@744dd79b579577cb6e131653260d7990946be3ad#egg=libworkflows-0.1",
#"libworkflows @ git+https://gitlab+deploy-token-31:isEzpsgbNf2sJMdUDy2g@gitlab.pasteur.fr/bli/libworkflows.git#egg=libworkflows-0.1",
#"libworkflows @ git+https://gitlab+deploy-token-31:isEzpsgbNf2sJMdUDy2g@gitlab.pasteur.fr/bli/libworkflows.git",
...
...
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