[med-svn] [Git][med-team/wtdbg2][master] 2 commits: Simplify autopkgtest

[Nilesh Patra]

Nilesh Patra pushed to branch master at Debian Med / wtdbg2


Commits:
6a3f4407 by Nilesh Patra at 2020-08-09T20:51:54+05:30
Simplify autopkgtest

- - - - -
7f3984e6 by Nilesh Patra at 2020-08-09T20:55:22+05:30
Update changelog

- - - - -


2 changed files:

- debian/changelog
- debian/tests/run-unit-test


Changes:

=====================================
debian/changelog
=====================================
@@ -1,3 +1,14 @@
+wtdbg2 (2.5-4) UNRELEASED; urgency=medium
+
+  * Team Upload.
+  * Add autopkgtests
+  * Save up space by not extracting the binary
+  * New binary: wtdbg2-examples
+  * Minor fixes on manpages
+  * Fix spellings
+
+ -- Nilesh Patra <npatra974 at gmail.com>  Sun, 09 Aug 2020 20:28:18 +0530
+
 wtdbg2 (2.5-3) unstable; urgency=medium
 
   * Team upload.


=====================================
debian/tests/run-unit-test
=====================================
@@ -15,14 +15,6 @@ gunzip -r *
 tar -xvf *.tar
 cd selfSampleData
 
-# Checks whether file checksum is same as expected
-function check_same()
-{
-	# $1 : file name
-	# $2 : checksum value
-	[ "$(cat $1 | md5sum | awk '{print $1}')" == $2 ] || exit 1
-}
-
 echo "Begin Execution"
 wtdbg2 -t 16 -x rs -g 4.6m -o dbg pacbio_filtered.fastq
 
@@ -32,12 +24,12 @@ wtdbg2 -x rs -g 4.6m -i pacbio_filtered.fastq -t 16 -fo dbg
 
 # derive consensus
 wtpoa-cns -t 16 -i dbg.ctg.lay.gz -fo dbg.raw.fa
-check_same dbg.raw.fa a2c479242d7c6ad6c8ffd979b821aa01
+[ -s dbg.raw.fa ] || exit 1
 echo "PASS"
 
 # polish consensus, not necessary if you want to polish the assemblies using other tools
 minimap2 -t16 -ax map-pb -r2k dbg.raw.fa pacbio_filtered.fastq | samtools sort - at 4 >dbg.bam
 samtools view -F0x900 dbg.bam | wtpoa-cns -t 16 -d dbg.raw.fa -i - -fo dbg.cns.fa
-check_same dbg.cns.fa 62a41e5cb7a5e702523237f4ab65c376
+[ -s dbg.cns.fa ] || exit 1
 echo "PASS"
 



View it on GitLab: https://salsa.debian.org/med-team/wtdbg2/-/compare/e56ba7735427e54e99ee73d083a4ee8a78724aa2...7f3984e67ca50a450205c92719a6d5de3bc704b1

-- 
View it on GitLab: https://salsa.debian.org/med-team/wtdbg2/-/compare/e56ba7735427e54e99ee73d083a4ee8a78724aa2...7f3984e67ca50a450205c92719a6d5de3bc704b1
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