[med-svn] r23865 - in trunk/packages/probalign/trunk/debian: . tests

[Nadiya Sitdykova]

Author: rovenskasa-guest
Date: 2017-07-06 19:00:50 +0000 (Thu, 06 Jul 2017)
New Revision: 23865

Added:
   trunk/packages/probalign/trunk/debian/README.test
   trunk/packages/probalign/trunk/debian/tests/
   trunk/packages/probalign/trunk/debian/tests/control
   trunk/packages/probalign/trunk/debian/tests/run-unit-test
   trunk/packages/probalign/trunk/debian/tests/test_data_n.fas
   trunk/packages/probalign/trunk/debian/tests/test_data_p.fas
Modified:
   trunk/packages/probalign/trunk/debian/changelog
   trunk/packages/probalign/trunk/debian/docs
Log:
add autopkgtest test-suite

Added: trunk/packages/probalign/trunk/debian/README.test
===================================================================
--- trunk/packages/probalign/trunk/debian/README.test	                        (rev 0)
+++ trunk/packages/probalign/trunk/debian/README.test	2017-07-06 19:00:50 UTC (rev 23865)
@@ -0,0 +1,9 @@
+
+Notes on how this package can be tested.
+────────────────────────────────────────
+
+This package can be tested by executing
+
+    sh run-unit-test
+
+in order to confirm its integrity.

Modified: trunk/packages/probalign/trunk/debian/changelog
===================================================================
--- trunk/packages/probalign/trunk/debian/changelog	2017-06-28 11:46:45 UTC (rev 23864)
+++ trunk/packages/probalign/trunk/debian/changelog	2017-07-06 19:00:50 UTC (rev 23865)
@@ -1,3 +1,12 @@
+probalign (1.4-6) UNRELEASED; urgency=medium
+
+  * Team upload.
+
+  [ Nadiya Sitdykova ]
+  * Add autopkgtest test-suite
+ 
+ -- Nadiya Sitdykova <rovenskasa at gmail.com>  Thu, 06 Jul 2017 14:54:18 -0400
+
 probalign (1.4-5) unstable; urgency=medium
 
   * Fix homepage

Modified: trunk/packages/probalign/trunk/debian/docs
===================================================================
--- trunk/packages/probalign/trunk/debian/docs	2017-06-28 11:46:45 UTC (rev 23864)
+++ trunk/packages/probalign/trunk/debian/docs	2017-07-06 19:00:50 UTC (rev 23865)
@@ -1 +1,4 @@
 README
+debian/README.test
+debian/tests/run-unit-test
+debian/tests/test_data*

Added: trunk/packages/probalign/trunk/debian/tests/control
===================================================================
--- trunk/packages/probalign/trunk/debian/tests/control	                        (rev 0)
+++ trunk/packages/probalign/trunk/debian/tests/control	2017-07-06 19:00:50 UTC (rev 23865)
@@ -0,0 +1,3 @@
+Tests: run-unit-test
+Depends: @
+Restrictions: allow-stderr

Added: trunk/packages/probalign/trunk/debian/tests/run-unit-test
===================================================================
--- trunk/packages/probalign/trunk/debian/tests/run-unit-test	                        (rev 0)
+++ trunk/packages/probalign/trunk/debian/tests/run-unit-test	2017-07-06 19:00:50 UTC (rev 23865)
@@ -0,0 +1,18 @@
+#!/bin/sh -e
+
+pkg=probalign
+
+if [ "$ADTTMP" = "" ] ; then
+  ADTTMP=$(mktemp -d /tmp/${pkg}-test.XXXXXX)
+  trap "rm -rf $ADTTMP" 0 INT QUIT ABRT PIPE TERM
+fi
+
+cd $ADTTMP
+
+cp -a /usr/share/doc/${pkg}/test_data* .
+gunzip -r *
+
+probalign -T 5 test_data_p.fas
+probalign -nuc test_data_n.fas
+probalign -v -go 20 test_data_p.fas
+probalign -nuc -a -ge 0.75 test_data_n.fas

Added: trunk/packages/probalign/trunk/debian/tests/test_data_n.fas
===================================================================
--- trunk/packages/probalign/trunk/debian/tests/test_data_n.fas	                        (rev 0)
+++ trunk/packages/probalign/trunk/debian/tests/test_data_n.fas	2017-07-06 19:00:50 UTC (rev 23865)
@@ -0,0 +1,8 @@
+>s1
+ACGTTTTCGAACCCCCCGAAATTTTGGGCGCGCGCACACACTCATCACTCTCGACGCAAAACGGCTGCACACACTCATCACTCTCGACGCAAAACGGCTGCAAAACGGCTGCACACACTCATCAC
+>s0
+ATTTCTCTCTCAAACCCCCCGAAATTTTGGGCGCGCGCACACACTCATCACTCTCGACGCAAAACATTTTGGGCGCGCGCACACACTCATCACTCATTTTGGGCGCGCGCACACACTCATCACTC
+>s3
+ATTTCTCTCTCAAACCCCCCGAAATTTTGGGCGCGCGCACACACTCATCACTCTCGACGCAAAACATTTTGGGCGCGCGCACACACTCGTCGCGCGAAACTACGCACGTGCGCACACACTCATCACTC
+>s2
+ACGTTTTCGAACCCCCCGAAATTTTCCCCCCCCCCCCCCCCCCCCCCACTCATCACTCTCGACGCAAAACGGCTGCACACACTCATCACTCTCGACGCAAAACGGCTGCAAAACGGCTGCACACACTCATCAC

Added: trunk/packages/probalign/trunk/debian/tests/test_data_p.fas
===================================================================
--- trunk/packages/probalign/trunk/debian/tests/test_data_p.fas	                        (rev 0)
+++ trunk/packages/probalign/trunk/debian/tests/test_data_p.fas	2017-07-06 19:00:50 UTC (rev 23865)
@@ -0,0 +1,8 @@
+>s1
+LLSPNGAGWVVAPITMHDSAQINMPWQRRKDFLVQACVPVLKNLYKRKYEKVIKSIVYERLYIFRGLWSGGCARYFDPPRCYKRSPEFYLGQFHGPLVHIGTMGHTECLHYGYDIQVNCNKHDNKVTPK
+>s0
+KTLCVTDEVAKPRILNRKEYERVVIYGGYQWTILFTKVWNGGSGFKCDPNRCLKQAKLYYLPLFHAPIVEAAHQAGGKSLKFELDIRQVSAMNASHKSGN
+>s3
+KVYYVEEAGSPTKGTFEEDYDGLELGAGFGWRTQLVRLWAKDCFNDTSKEPNTCFRKPSKLYNGEVREIVLEAAGYTKAGDMRYAAVQSVAAAHTRNKTTDS
+>s2
+KTFYINVDTNPMKALYKHEYNRELSGIPLDWSSLVGRLWAKDCFTTKLNDPSERFRPPTKGFNKEDCLIVLAVNVQTHGGTLRFGIPERVKCDRSRSKSTGK