[med-svn] [clustalo] 01/01: Autopkgtest added

[Canberk Koç]

This is an automated email from the git hooks/post-receive script.

cbk-guest pushed a commit to branch master
in repository clustalo.

commit d5c7269dfc3e49b69e30f126edf25f57a41fe73d
Author: cbk-guest <cbk-guests at scm.alioth.debian.org>
Date:   Tue Jul 12 16:48:04 2016 +0300

    Autopkgtest added
---
 debian/changelog           |  8 +++++++-
 debian/clustalo.examples   |  1 +
 debian/example.fa          | 42 ++++++++++++++++++++++++++++++++++++++++++
 debian/tests/control       |  3 +++
 debian/tests/run-unit-test | 25 +++++++++++++++++++++++++
 5 files changed, 78 insertions(+), 1 deletion(-)

diff --git a/debian/changelog b/debian/changelog
index 263aa29..4ae9fc1 100644
--- a/debian/changelog
+++ b/debian/changelog
@@ -1,10 +1,16 @@
 clustalo (1.2.2-1) UNRELEASED; urgency=medium
 
+  * Team upload
+
+  [ Andreas Tille ]
   * New upstream version
   * Moved packaging from SVN to Git
   * hardening=+all
 
- -- Andreas Tille <tille at debian.org>  Mon, 04 Jul 2016 11:03:33 +0200
+  [ Canberk Koç ]
+  * Autopkgtests added
+
+ -- Canberk Koç <canberkkoc at gmail.com>  Tue, 12 Jul 2016 16:43:31 +0300
 
 clustalo (1.2.1-2) unstable; urgency=medium
 
diff --git a/debian/clustalo.examples b/debian/clustalo.examples
new file mode 100644
index 0000000..43d335e
--- /dev/null
+++ b/debian/clustalo.examples
@@ -0,0 +1 @@
+debian/example.fa
diff --git a/debian/example.fa b/debian/example.fa
new file mode 100644
index 0000000..ff8aa63
--- /dev/null
+++ b/debian/example.fa
@@ -0,0 +1,42 @@
+>CALM_HUMAN
+MADQLTEEQIAEFKEAFSLFDKDGDGTITTKELGTVMRSLGQNPTEAELQDMINEVDAD
+GNGTIDFPEFLTMMARKMKDTDSEEEIREAFRVFDKDGNGYISAAELRHVMTNLGEKLT
+DEEVDEMIREADIDGDGQVNYEEFVQMMTAK
+>AF01595 Human telomerase reverse transcriptase (hTRT) mRNA
+MPRAPRCRAVRSLLRSHYREVLPLATFVRRLGPQGWRLVQRGDPAAFRALVAQCLVCVP
+WDARPPPAAPSFRQVSCLKELVARVLQRLCERGAKNVLAFGFALLDGARGGPPEAFTTS
+VRSYLPNTVTDALRGSGAWGLLLRRVGDDVLVHLLARCALFVLVAPSCAYQVCGPPLYQ
+LGAATQARPPPHASGPRRRLGCERAWNHSVREAGVPLGLPAPGARRRGGSASRSLPLPK
+RPRRGAAPEPERTPVGQGSWAHPGRTRGPSDRGFCVVSPARPAEEATSLEGALSGTRHS
+HPSVGRQHHAGPPSTSRPPRPWDTPCPPVYAETKHFLYSSGDKEQLRPSFLLSSLRPSL
+TGARRLVETIFLGSRPWMPGTPRRLPRLPQRYWQMRPLFLELLGNHAQCPYGVLLKTHC
+PLRAAVTPAAGVCAREKPQGSVAAPEEEDTDPRRLVQLLRQHSSPWQVYGFVRACLRRL
+VPPGLWGSRHNERRFLRNTKKFISLGKHAKLSLQELTWKMSVRDCAWLRRSPGVGCVPA
+AEHRLREEILAKFLHWLMSVYVVELLRSFFYVTETTFQKNRLFFYRKSVWSKLQSIGIR
+QHLKRVQLRELSEAEVRQHREARPALLTSRLRFIPKPDGLRPIVNMDYVVGARTFRREK
+RAERLTSRVKALFSVLNYERARRPGLLGASVLGLDDIHRAWRTFVLRVRAQDPPPELYF
+VKVDVTGAYDTIPQDRLTEVIASIIKPQNTYCVRRYAVVQKAAHGHVRKAFKSHVSTLT
+DLQPYMRQFVAHLQETSPLRDAVVIEQSSSLNEASSGLFDVFLRFMCHHAVRIRGKSYV
+QCQGIPQGSILSTLLCSLCYGDMENKLFAGIRRDGLLLRLVDDFLLVTPHLTHAKTFLR
+TLVRGVPEYGCVVNLRKTVVNFPVEDEALGGTAFVQMPAHGLFPWCGLLLDTRTLEVQS
+DYSSYARTSIRASLTFNRGFKAGRNMRRKLFGVLRLKCHSLFLDLQVNSLQTVCTNIYK
+ILLLQAYRFHACVLQLPFHQQVWKNPTFFLRVISDTASLCYSILKAKNAGMSLGAKGAA
+GPLPSEAVQWLCHQAFLLKLTRHRVTYVPLLGSLRTAQTQLSRKLPGTTLTALEAAANP
+ALPSDFKTILD
+>P53_HUMAN
+MEEPQSDPSVEPPLSQETFSDLWKLLPENNVLSPLPSQAMDDLMLSPDDIEQWFTEDPGP
+DEAPRMPEAAPPVAPAPAAPTPAAPAPAPSWPLSSSVPSQKTYQGSYGFRLGFLHSGTAK
+SVTCTYSPALNKMFCQLAKTCPVQLWVDSTPPPGTRVRAMAIYKQSQHMTEVVRRCPHHE
+RCSDSDGLAPPQHLIRVEGNLRVEYLDDRNTFRHSVVVPYEPPEVGSDCTTIHYNYMCNS
+SCMGGMNRRPILTIITLEDSSGNLLGRNSFEVHVCACPGRDRRTEEENLRKKGEPHHELP
+PGSTKRALPNNTSSSPQPKKKPLDGEYFTLQIRGRERFEMFRELNEALELKDAQAGKEPG
+GSRAHSSHLKSKKGQSTSRHKKLMFKTEGPDSD
+>TUBE_DROME
+MAYGWNGCGMGVQVNGSNGAIGLSSKYSRNTELRRVEDNDIYRLAKILDENSCWRKLMS
+IIPKGMDVQACSGAGCLNFPAEIKKGFKYTAQDVFQIDEAANRLPPDQSKSQMMIDEWK
+TSGKLNERPTVGVLLQLLVQAELFSAADFVALDFLNESTPARPVDGPGALISLELLEEE
+MEVDNEGLSLKYQSSTATLGADAQGSVGLNLDNFEKDIVRRDKSVPQPSGNTPPIAPPR
+RQQRSTTNSNFATLTGTGTTSTTIPNVPNLTILNPSEQIQEPVLQPRPMNIPDLSILIS
+NSGDLRATVSDNPSNRTSSTDPPNIPRITLLIDNSGDVNSRPNHAPAKASTATTPTASS
+NNLPMISALNISKGSKETLRPESRSSSSSLSKDDDDDNDGEEDGEEEYPDAFLPNLSNS
+EQQSSNNDSSLTTVTGTSGDNSFELTNDSSSTSNDDYACNIPDLSELQQ
diff --git a/debian/tests/control b/debian/tests/control
new file mode 100644
index 0000000..d2aa55a
--- /dev/null
+++ b/debian/tests/control
@@ -0,0 +1,3 @@
+Tests: run-unit-test
+Depends: @
+Restrictions: allow-stderr
diff --git a/debian/tests/run-unit-test b/debian/tests/run-unit-test
new file mode 100644
index 0000000..33a8b41
--- /dev/null
+++ b/debian/tests/run-unit-test
@@ -0,0 +1,25 @@
+#!/bin/bash
+set -e
+
+pkg="clustalo"
+
+if [ "$AUTOPKGTEST_TMP" = "" ] ; then
+  AUTOPKGTEST_TMP=`mktemp -d /tmp/${pkg}-test.XXXXXX`
+fi
+
+cp -a /usr/share/doc/${pkg}/examples/* $AUTOPKGTEST_TMP
+
+cd $AUTOPKGTEST_TMP
+
+/usr/bin/clustalo -i example.fa
+/usr/bin/clustalo -i example.fa -o example.sto --outfmt=st
+/usr/bin/clustalo -i example.fa	-o example.aln --outfmt=clu --force
+/usr/bin/clustalo -i example.fa --guidetree-out=example.dnd --force
+/usr/bin/clustalo -i example.fa	--guidetree-in=example.dnd
+/usr/bin/clustalo -i example.sto
+/usr/bin/clustalo -i example.sto  --dealign
+/usr/bin/clustalo -i example.fa --iter=2
+/usr/bin/clustalo -i example.fa --iter=5 --max-guidetree-iterations=1
+/usr/bin/clustalo -i example.fa -o example.a2m -v
+
+echo "PASS"

-- 
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