[med-svn] [Git][med-team/dazzdb][master] Run autopkgtests with seeds to compare output with checksums

[Pranav Ballaney]

Pranav Ballaney pushed to branch master at Debian Med / dazzdb


Commits:
2bbb7e66 by Pranav Ballaney at 2020-07-27T22:41:14+05:30
Run autopkgtests with seeds to compare output with checksums

- - - - -


1 changed file:

- debian/tests/run-unit-test


Changes:

=====================================
debian/tests/run-unit-test
=====================================
@@ -14,15 +14,47 @@ fi
 
 cd "${AUTOPKGTEST_TMP}"
 
-rangen 1.0 >R.fasta           #  Generate a randome 1Mbp sequence R.fasta
-fasta2DAM R R.fasta           #  Load it into a .dam DB R.dam
-dsimulator R -c20. >G.fasta    #  Sample a 20x data sets of the random geneome R
-fasta2DB G G.fasta            #  Create a compressed data base of the reads, G.db
-rm G.fasta                    #  Redundant, recreate any time with "DB2fasta G"
-DBsplit -s11 G                #  Split G into 2 parts of size ~ 11MB each
-DBdust G.1                    #  Produce a "dust" track on each part
+# Generate a random 1Mbp sequence R.fasta
+rangen 1.0 -r2020 > R.fasta
+echo "e259b3524f74d97e70ecf97f9078b77e  R.fasta" >> checksums
+
+# Load it into a .dam DB R.dam
+fasta2DAM R R.fasta
+echo "ab5f001069bd928051b01c42bbf91f5b  .R.bps" >> checksums
+echo "89ad93fbaa6e7a645c76ffdf1fb43792  .R.hdr" >> checksums
+echo "8ebbdc9428ac6f3b5e407ee43a86ecc4  .R.idx" >> checksums
+echo "c4795a84d7a81407c9a25b75c4a96621  R.dam" >> checksums
+
+# Sample a 20x data sets of the random geneome R
+dsimulator R -c20. -r2020 > G.fasta
+echo "4382a3340b21340efcc5c878c1e07216  G.fasta" >> checksums
+
+# Create a compressed data base of the reads, G.db
+fasta2DB G G.fasta
+echo "fa422bad76a2b9119c182be811f389d1  .G.bps" >> checksums
+
+
+# Split G into 2 parts of size ~ 11MB each
+DBsplit -s11 G
+echo "25a447c3375b8581314e7c92641b01a2  .G.idx" >> checksums
+echo "f6cec403e88918a5c93f265de226ca75  G.db" >> checksums
+
+# Produce a "dust" track on each part
+DBdust G.1
+echo "4d128adb1b639552ea751f6e1b4d35bb  .G.1.dust.anno" >> checksums
+echo "e8dcdd4094198898e51ac431cd3b071b  .G.1.dust.data" >> checksums
 DBdust G.2
-Catrack G dust                #  Create one track for all of the DB
-rm .G.*.dust.*                #  Clean up the sub-tracks
-DBstats -mdust G              #  Take a look at the statistics for the database
+echo "3957f13eabc099461179b1b5be3393be  .G.2.dust.anno" >> checksums
+echo "7ae21880213ececd5411097bc5787386  .G.2.dust.data" >> checksums
+
+#  Create one track for all of the DB
+Catrack G dust
+echo "99cd6dcb6c6206f4770500ec7e6c0bc3  .G.dust.anno" >> checksums
+echo "df77d8ad1ca51e730bb11597d2c8bd93  .G.dust.data" >> checksums
+
+#  Take a look at the statistics for the database
+DBstats -mdust G > result
+echo "5c5c5f89a9ae055cc06487febc6adb3d  result" >> checksums
+
+md5sum --check checksums
 



View it on GitLab: https://salsa.debian.org/med-team/dazzdb/-/commit/2bbb7e66a85b88d8e91a89b9a0b3203c13c02acb

-- 
View it on GitLab: https://salsa.debian.org/med-team/dazzdb/-/commit/2bbb7e66a85b88d8e91a89b9a0b3203c13c02acb
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/20200727/f67097bc/attachment-0001.html>