[med-svn] [Git][med-team/hisat2][master] Extending support for Python files of hisat2

[Steffen Möller]

Steffen Möller pushed to branch master at Debian Med / hisat2


Commits:
8c33f705 by Steffen Moeller at 2019-04-17T22:55:00Z
Extending support for Python files of hisat2

bcbio needs them to build-testing

- - - - -


3 changed files:

- debian/changelog
- debian/control
- debian/install → debian/hisat2.install


Changes:

=====================================
debian/changelog
=====================================
@@ -2,6 +2,11 @@ hisat2 (2.1.0-3) UNRELEASED; urgency=medium
 
   * Install hisat2_extract_splice_sites.py
 
+  [ Steffen Moeller ]
+
+  * Separated series of .py scripts and modules into separate
+    python3-hisat2 package.
+
  -- Andreas Tille <tille at debian.org>  Mon, 25 Mar 2019 11:35:33 +0100
 
 hisat2 (2.1.0-2) unstable; urgency=medium


=====================================
debian/control
=====================================
@@ -16,8 +16,8 @@ Package: hisat2
 Architecture: amd64 kfreebsd-amd64
 Depends: ${shlibs:Depends},
          ${misc:Depends},
-         ${perl:Depends},
-         python
+         ${perl:Depends}
+Recommends: python3-hisat2
 Description: graph-based alignment of short nucleotide reads to many genomes
  HISAT2 is a fast and sensitive alignment program for mapping next-generation
  sequencing reads (both DNA and RNA) to a population of human genomes (as well
@@ -30,3 +30,24 @@ Description: graph-based alignment of short nucleotide reads to many genomes
  indexes), combined with several alignment strategies, enable rapid and
  accurate alignment of sequencing reads. This new indexing scheme is called a
  Hierarchical Graph FM index (HGFM). 
+
+Package: python3-hisat2
+Architecture: all
+Depends: ${misc:Depends},
+         hisat2,
+         python
+Description: Python scripts accompanying hisat2
+ HISAT2 is a fast and sensitive alignment program for mapping next-generation
+ sequencing reads (both DNA and RNA) to a population of human genomes (as well
+ as against a single reference genome). Based on an extension of BWT for graphs
+ a graph FM index (GFM) was designed and implementd. In addition to using
+ one global GFM index that represents a population of human genomes, HISAT2
+ uses a large set of small GFM indexes that collectively cover the whole genome
+ (each index representing a genomic region of 56 Kbp, with 55,000 indexes
+ needed to cover the human population). These small indexes (called local
+ indexes), combined with several alignment strategies, enable rapid and
+ accurate alignment of sequencing reads. This new indexing scheme is called a
+ Hierarchical Graph FM index (HGFM). 
+ .
+ This package provides a serires of platform-independent scripts that are typically
+ expected to be co-installed with the hisat2 binary.


=====================================
debian/install → debian/hisat2.install
=====================================
@@ -1,5 +1,4 @@
 hisat2 /usr/bin/
-hisat2_extract_splice_sites	/usr/bin
 hisat2-build /usr/bin/
 hisat2-build-s /usr/bin/
 hisat2-build-l /usr/bin/



View it on GitLab: https://salsa.debian.org/med-team/hisat2/commit/8c33f70533310cf602c9028e42994a262987a36a

-- 
View it on GitLab: https://salsa.debian.org/med-team/hisat2/commit/8c33f70533310cf602c9028e42994a262987a36a
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