[med-svn] [Git][med-team/igdiscover][master] 2 commits: Adjusting build dependencies

[Andreas Tille]

Andreas Tille pushed to branch master at Debian Med / igdiscover


Commits:
1cc07041 by Steffen Möller at 2019-02-12T09:25:15Z
Adjusting build dependencies

- - - - -
df76dec7 by Steffen Möller at 2019-08-01T23:06:59Z
Fixed FTBFS with new cutadapt (>= 2.3)

- - - - -


4 changed files:

- debian/changelog
- debian/control
- + debian/patches/minoverlap.patch
- + debian/patches/series


Changes:

=====================================
debian/changelog
=====================================
@@ -1,4 +1,11 @@
-igdiscover (0.11-1) UNRELEASED; urgency=medium
+igdiscover (0.11-2) unstable; urgency=medium
+
+  * Introduced patch for compatibility with later versions
+    of cutadapt - upstream has it already in their master branch.
+
+ -- Steffen Moeller <moeller at debian.org>  Fri, 02 Aug 2019 00:55:02 +0200
+
+igdiscover (0.11-1) unstable; urgency=medium
 
   * Initial release (Closes: #919718)
 


=====================================
debian/control
=====================================
@@ -38,9 +38,8 @@ Depends: ${python3:Depends},
          python3-cutadapt,
          python3-scipy (>=0.16.1),
          python3-xopen (>=0.3.2),
+         python3-seaborn (>=0.9),
          python3-ruamel.yaml
-Recommends: python3-seaborn (>=0.8.1),
-            python3-matplotlib
 Suggests: snakemake,
           igdiscover-doc
 Description: analyzes antibody repertoires to find new V genes


=====================================
debian/patches/minoverlap.patch
=====================================
@@ -0,0 +1,14 @@
+Index: igdiscover/igdiscover/utils.py
+===================================================================
+--- igdiscover.orig/igdiscover/utils.py
++++ igdiscover/igdiscover/utils.py
+@@ -330,8 +330,7 @@ def find_overlap(s, t, min_overlap=1):
+ 	>>> find_overlap('ABC', 'X') is None
+ 	True
+ 	"""
+-	aligner = Aligner(s, max_error_rate=0)
+-	aligner.min_overlap = min_overlap
++	aligner = Aligner(s, max_error_rate=0, min_overlap=min_overlap)
+ 	result = aligner.locate(t)
+ 	if result is None:
+ 		return None


=====================================
debian/patches/series
=====================================
@@ -0,0 +1 @@
+minoverlap.patch



View it on GitLab: https://salsa.debian.org/med-team/igdiscover/compare/dc8ee7231d33b6e526845fcb32a407ead20cb1a1...df76dec71814551cc3d7914005f4a2e15635b7be

-- 
View it on GitLab: https://salsa.debian.org/med-team/igdiscover/compare/dc8ee7231d33b6e526845fcb32a407ead20cb1a1...df76dec71814551cc3d7914005f4a2e15635b7be
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