[med-svn] r22445 - in trunk/packages/rostlab/profphd-utils/trunk/debian: . tests

[Tatiana Malygina]

Author: latticetower-guest
Date: 2016-07-08 14:08:54 +0000 (Fri, 08 Jul 2016)
New Revision: 22445

Added:
   trunk/packages/rostlab/profphd-utils/trunk/debian/tests/
   trunk/packages/rostlab/profphd-utils/trunk/debian/tests/control
   trunk/packages/rostlab/profphd-utils/trunk/debian/tests/convert-seq-test
   trunk/packages/rostlab/profphd-utils/trunk/debian/tests/filter-hssp-test
Modified:
   trunk/packages/rostlab/profphd-utils/trunk/debian/changelog
Log:
add testsuite for autopkgtest

Modified: trunk/packages/rostlab/profphd-utils/trunk/debian/changelog
===================================================================
--- trunk/packages/rostlab/profphd-utils/trunk/debian/changelog	2016-07-08 14:08:07 UTC (rev 22444)
+++ trunk/packages/rostlab/profphd-utils/trunk/debian/changelog	2016-07-08 14:08:54 UTC (rev 22445)
@@ -3,6 +3,7 @@
   * Team upload.
   * add debian/examples/ to use with testsuite
   * add profphd-utils.examples
+  * add testsuite for autopkgtest
 
  -- Tatiana Malygina <merlettaia at gmail.com>  Fri, 08 Jul 2016 17:03:18 +0300
 

Added: trunk/packages/rostlab/profphd-utils/trunk/debian/tests/control
===================================================================
--- trunk/packages/rostlab/profphd-utils/trunk/debian/tests/control	                        (rev 0)
+++ trunk/packages/rostlab/profphd-utils/trunk/debian/tests/control	2016-07-08 14:08:54 UTC (rev 22445)
@@ -0,0 +1,2 @@
+Tests: convert-seq-test, filter-hssp-test
+Depends: @

Added: trunk/packages/rostlab/profphd-utils/trunk/debian/tests/convert-seq-test
===================================================================
--- trunk/packages/rostlab/profphd-utils/trunk/debian/tests/convert-seq-test	                        (rev 0)
+++ trunk/packages/rostlab/profphd-utils/trunk/debian/tests/convert-seq-test	2016-07-08 14:08:54 UTC (rev 22445)
@@ -0,0 +1,33 @@
+#!/bin/sh
+# autopkgtest check: build and run with default test data
+# Author: Tatiana Malygina <merlettaia at gmail.com>
+
+set -e
+
+pkg=profphd-utils
+
+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}/examples/* .
+find . -type f -name "*.gz" -exec gunzip \{\} \;
+for lnk in `find . -type l -name "*.gz"` ; do
+    ln -s `basename $(readlink $lnk) .gz` `echo $lnk | sed 's/\.gz$//'`
+    rm $lnk
+done
+
+# NOTE: following commands were used because convert_seq works in interactive 
+# mode. Each `\n` means enter and corresponds to moving forward to next command.
+# Thus, following calls emulate interactive mode.
+# As stated in man page, program writes output to STDOUT.
+# It means that in normal situation no errors should be produced.
+
+echo "1ppt.hssp\nm\n\n\n\n" | convert_seq
+[ -s 1ppt.msf ]
+
+echo "1ppt.hssp\ny\n\n\n\n" | convert_seq
+[ -s 1ppt.phy ]

Added: trunk/packages/rostlab/profphd-utils/trunk/debian/tests/filter-hssp-test
===================================================================
--- trunk/packages/rostlab/profphd-utils/trunk/debian/tests/filter-hssp-test	                        (rev 0)
+++ trunk/packages/rostlab/profphd-utils/trunk/debian/tests/filter-hssp-test	2016-07-08 14:08:54 UTC (rev 22445)
@@ -0,0 +1,33 @@
+#!/bin/sh
+# autopkgtest check: build and run with default test data
+# Author: Tatiana Malygina <merlettaia at gmail.com>
+
+set -e
+
+pkg=profphd-utils
+
+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}/examples/* .
+find . -type f -name "*.gz" -exec gunzip \{\} \;
+for lnk in `find . -type l -name "*.gz"` ; do
+    ln -s `basename $(readlink $lnk) .gz` `echo $lnk | sed 's/\.gz$//'`
+    rm $lnk
+done
+
+# NOTE: following commands were used because filter_hssp works in interactive 
+# mode. Each `\n` means enter and corresponds to moving forward to next 
+# command.
+# Thus, following calls emulate interactive mode.
+# As stated in man page, program writes output to STDOUT.
+# It means that in normal situation no errors should be produced.
+
+#metric_path="/usr/share/profphd/prof/mat/Maxhom_GCG.metric"
+metric_path="Maxhom_GCG.metric"
+echo "1ppt.hssp\n1ppt_filtered.hssp\n${metric_path}\n\n\n\n" | filter_hssp
+[ -s 1ppt_filtered.hssp ]