From b40c5634cf823d1c4cd2332bae4c4f17da31a923 Mon Sep 17 00:00:00 2001
From: Fontrodona Nicolas <nicolas.fontrodona@ens-lyon.fr>
Date: Wed, 17 Feb 2021 09:52:11 +0100
Subject: [PATCH]
src/find_interaction_cluster/clip_figures/clip_launcher_4_many_communities.py:
chnage tiles in merge_figures function + pep8 changes
---
.../clip_figures/clip_launcher_4_many_communities.py | 11 +++++------
1 file changed, 5 insertions(+), 6 deletions(-)
diff --git a/src/find_interaction_cluster/clip_figures/clip_launcher_4_many_communities.py b/src/find_interaction_cluster/clip_figures/clip_launcher_4_many_communities.py
index 9d5b0616..f860053a 100644
--- a/src/find_interaction_cluster/clip_figures/clip_launcher_4_many_communities.py
+++ b/src/find_interaction_cluster/clip_figures/clip_launcher_4_many_communities.py
@@ -61,7 +61,7 @@ def select_community_file(project: str, weight: int, global_weight: int,
return com_file, output
-def create_figure(p: Dict , clip_file: Path,
+def create_figure(p: Dict, clip_file: Path,
feature_bed: Path,
community_file: Tuple[str, str],
test_type: str = "permutation",
@@ -115,7 +115,7 @@ def merge_figures(folder: Path) -> None:
:param folder: A folder containing pdf files
"""
fig_name = folder.name
- cmd = f"montage -geometry +1+1 -tile 1X6 " \
+ cmd = f"montage -geometry +1+1 -tile 1X4 " \
f"-compress jpeg -density 100 -label %t -pointsize 50 " \
f"{folder}/*.tmp.pdf {folder}/{fig_name}.pdf"
sp.check_call(cmd, shell=True)
@@ -129,7 +129,7 @@ def clip_folder_analysis(clip_folder: str, weight: int,
cell_line: str = "ALL",
feature: str = "exon",
test_type: str = "permutation",
- iteration: int = 10000, display_size: bool=False,
+ iteration: int = 10000, display_size: bool = False,
sl_reg: bool = False) -> None:
"""
Create the final figure
@@ -153,7 +153,6 @@ def clip_folder_analysis(clip_folder: str, weight: int,
False to display nothing. (default False)
:param sl_reg: True to display the FaRLine regulation of the \
same factor, False to not display it.
- :param ps: The number of processes to create (default 1)
"""
logging_def(ConfigGraph.community_folder, __file__, "INFO")
clip_folder = Path(clip_folder)
@@ -167,7 +166,7 @@ def clip_folder_analysis(clip_folder: str, weight: int,
"cell_line": cell_line, "feature": feature}
prod = list(product(files, zip(ConfigClip.communities,
- ConfigClip.communities_name)))
+ ConfigClip.communities_name)))
pool = mp.Pool(processes=min(len(prod), ConfigGraph.cpu))
for mfile, community_file in prod:
if community_file[0] == "":
@@ -184,4 +183,4 @@ def clip_folder_analysis(clip_folder: str, weight: int,
if __name__ == "__main__":
- clip_folder_analysis()
\ No newline at end of file
+ clip_folder_analysis()
--
GitLab