[med-svn] [Git][med-team/hts-nim-tools][master] 5 commits: New upstream version 0.2.1

[Nilesh Patra]

Nilesh Patra pushed to branch master at Debian Med / hts-nim-tools


Commits:
9dc6bcf7 by Nilesh Patra at 2020-11-13T23:57:44+05:30
New upstream version 0.2.1
- - - - -
e774ab44 by Nilesh Patra at 2020-11-13T23:57:44+05:30
routine-update: New upstream version

- - - - -
61931e6f by Nilesh Patra at 2020-11-13T23:57:45+05:30
Update upstream source from tag 'upstream/0.2.1'

Update to upstream version '0.2.1'
with Debian dir 7f8d335dca30179aa63906564907861d6ea68ef9
- - - - -
98db643b by Nilesh Patra at 2020-11-13T23:58:50+05:30
Remove patch since new release is tagged

- - - - -
adc4aa02 by Nilesh Patra at 2020-11-13T23:59:28+05:30
routine-update: Ready to upload to unstable

- - - - -


5 changed files:

- debian/changelog
- − debian/patches/import_random.patch
- − debian/patches/series
- hts_nim_tools.nimble
- src/copy_number_sampler.nim


Changes:

=====================================
debian/changelog
=====================================
@@ -1,3 +1,9 @@
+hts-nim-tools (0.2.1-1) unstable; urgency=medium
+
+  * New upstream version
+
+ -- Nilesh Patra <npatra974 at gmail.com>  Fri, 13 Nov 2020 23:59:28 +0530
+
 hts-nim-tools (0.2.0-3) unstable; urgency=medium
 
   * Added dependency on nim-hts-dev, without which the library could


=====================================
debian/patches/import_random.patch deleted
=====================================
@@ -1,28 +0,0 @@
-Description: Reinstante compatibilitz with nim 1.4
-Forward: This is effectively a backport of a change I found in the current
-         github repository. I asked to tag a new release on
-         https://github.com/brentp/hts-nim-tools/issues/11
-Author: Steffen Moeller <moeller at debian.org>
-Index: hts-nim-tools/src/copy_number_sampler.nim
-===================================================================
---- hts-nim-tools.orig/src/copy_number_sampler.nim
-+++ hts-nim-tools/src/copy_number_sampler.nim
-@@ -6,6 +6,7 @@ import lapper
- import strutils
- import tables
- import algorithm
-+import random
- 
- import ./version
- 
-@@ -84,8 +85,8 @@ proc internal_sampler(ibam:Bam, obam:var
- 
-     var po = overlap_p(res[0], record)
- 
--    if res[0].prob < 1 and random(1.0) < res[0].prob:
--      if po == 1 or po < 3.0 * random(1.0):
-+    if res[0].prob < 1 and rand(1.0) < res[0].prob:
-+      if po == 1 or po < 3.0 * rand(1.0):
-         obam.write(record)
-       continue
- 


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


=====================================
hts_nim_tools.nimble
=====================================
@@ -1,5 +1,5 @@
 # Package
-version       = "0.2.0"
+version       = "0.2.1"
 author        = "Brent Pedersen"
 description   = "hts-nim command-line tools"
 license       = "MIT"


=====================================
src/copy_number_sampler.nim
=====================================
@@ -84,8 +84,8 @@ proc internal_sampler(ibam:Bam, obam:var Bam, regions:TableRef[string, seq[cnv]]
 
     var po = overlap_p(res[0], record)
 
-    if res[0].prob < 1 and random(1.0) < res[0].prob:
-      if po == 1 or po < 3.0 * random(1.0):
+    if res[0].prob < 1 and rand(1.0) < res[0].prob:
+      if po == 1 or po < 3.0 * rand(1.0):
         obam.write(record)
       continue
 



View it on GitLab: https://salsa.debian.org/med-team/hts-nim-tools/-/compare/8e4f2076834c3d7d720def0b2727aa3902a77a5c...adc4aa02fa0f139a214c873543eff507130d85a9

-- 
View it on GitLab: https://salsa.debian.org/med-team/hts-nim-tools/-/compare/8e4f2076834c3d7d720def0b2727aa3902a77a5c...adc4aa02fa0f139a214c873543eff507130d85a9
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