[med-svn] [Git][med-team/lefse][master] 5 commits: Correct patch header metadata

[Ananthu C V (@weepingclown)]

Ananthu C V pushed to branch master at Debian Med / lefse


Commits:
d69e3719 by Ananthu C V at 2024-12-04T23:43:02+05:30
Correct patch header metadata

- - - - -
ff8fbfbf by Ananthu C V at 2024-12-04T23:45:12+05:30
Fix typos in manpages

- - - - -
367c4f00 by Ananthu C V at 2024-12-05T00:08:04+05:30
Add patch to fix syntaxwarnings (Closes: #1085666)

- - - - -
aa5c204d by Ananthu C V at 2024-12-05T00:08:15+05:30
Bump standards version to 4.7.0 (no changes needed)

- - - - -
713d9c56 by Ananthu C V at 2024-12-05T00:19:12+05:30
Update changelog

- - - - -


8 changed files:

- debian/changelog
- debian/control
- debian/mans/lefse_plot_features.py.1
- debian/mans/lefse_plot_res.py.1
- debian/mans/lefse_run.py.1
- debian/patches/2to3.patch
- debian/patches/series
- + debian/patches/use-raw-strings.patch


Changes:

=====================================
debian/changelog
=====================================
@@ -1,3 +1,12 @@
+lefse (1.1.2-2) UNRELEASED; urgency=medium
+
+  * Correct patch header metadata
+  * Fix typos in manpages
+  * Add patch to fix syntaxwarnings (Closes: #1085666)
+  * Bump standards version to 4.7.0 (no changes needed)
+
+ -- Ananthu C V <weepingclown at disroot.org>  Thu, 05 Dec 2024 00:18:51 +0530
+
 lefse (1.1.2-1) unstable; urgency=medium
 
   * Fix Homepage


=====================================
debian/control
=====================================
@@ -7,7 +7,7 @@ Build-Depends: debhelper-compat (= 13),
                dh-python,
                python3-all,
                python3-setuptools
-Standards-Version: 4.6.0
+Standards-Version: 4.7.0
 Vcs-Browser: https://salsa.debian.org/med-team/lefse
 Vcs-Git: https://salsa.debian.org/med-team/lefse.git
 Homepage: https://github.com/SegataLab/lefse


=====================================
debian/mans/lefse_plot_features.py.1
=====================================
@@ -65,7 +65,7 @@ unused
 the format for the output file
 .TP
 \fB\-f\fR {all,diff,one}
-wheter to plot all features (all), only those
+whether to plot all features (all), only those
 differentially abundant according to LEfSe or only one
 (the one given with \fB\-\-feature_name\fR)
 .TP


=====================================
debian/mans/lefse_plot_res.py.1
=====================================
@@ -61,7 +61,7 @@ only for vertical histograms
 set the color of the background
 .TP
 \fB\-\-subclades\fR N_SCL
-number of label levels to be dislayed (starting from
+number of label levels to be displayed (starting from
 the leaves, \fB\-1\fR means all the levels, 1 is default )
 .TP
 \fB\-\-max_feature_len\fR MAX_FEATURE_LEN


=====================================
debian/mans/lefse_run.py.1
=====================================
@@ -45,7 +45,7 @@ max log ingluence of LDA coeff
 verbose execution (default 0)
 .TP
 \fB\-\-wilc\fR int
-wheter to perform the Wicoxon step (default 1)
+whether to perform the Wicoxon step (default 1)
 .TP
 \fB\-r\fR str
 select LDA or SVM for effect size (default LDA)


=====================================
debian/patches/2to3.patch
=====================================
@@ -1,7 +1,7 @@
 Description: 2to3 to port from python2 to python3
 Bug-Debian: https://bugs.debian.org/936836
 Author: Shayan Doust <hello at shayandoust.me>
-Last-Update: Mon, 09 Sep 2019 21:01:50 +0200
+Last-Update: 2019-09-09
 
 --- a/lefsebiom/AbundanceTable.py
 +++ b/lefsebiom/AbundanceTable.py


=====================================
debian/patches/series
=====================================
@@ -1 +1,2 @@
 2to3.patch
+use-raw-strings.patch


=====================================
debian/patches/use-raw-strings.patch
=====================================
@@ -0,0 +1,23 @@
+Description: use raw strings for strings with escape sequences
+Author: Ananthu C V <weepingclown at debian.org>
+Bug-Debian: https://bugs.debian.org/1085666
+Last-Update: 2024-12-04
+--- a/lefsebiom/AbundanceTable.py
++++ b/lefsebiom/AbundanceTable.py
+@@ -386,3 +386,3 @@
+         #Used to substitute . to -
+-        reSubPeriod = re.compile('\.')
++        reSubPeriod = re.compile(r'\.')
+ 
+--- a/lefse/lefse_format_input.py
++++ b/lefse/lefse_format_input.py
+@@ -273,3 +273,3 @@
+ 
+-    for v in ["\|"]:
++    for v in [r"\|"]:
+         ret = [re.sub(v,".",f) for f in ret]
+@@ -463,2 +463,2 @@
+ if  __name__ == '__main__':
+-    format_input()
+\ No newline at end of file
++    format_input()



View it on GitLab: https://salsa.debian.org/med-team/lefse/-/compare/5507a90038ca8fee55cb90391276c0c4323281a7...713d9c56c25d83f9f72fa00a3fafe88d43329e4c

-- 
View it on GitLab: https://salsa.debian.org/med-team/lefse/-/compare/5507a90038ca8fee55cb90391276c0c4323281a7...713d9c56c25d83f9f72fa00a3fafe88d43329e4c
You're receiving this email because of your account on salsa.debian.org.


-------------- next part --------------
An HTML attachment was scrubbed...
URL: <http://alioth-lists.debian.net/pipermail/debian-med-commit/attachments/20241204/9d1697f2/attachment-0001.htm>