[med-svn] [mapdamage] branch master updated (6e044d6 -> 30436da)

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[med-svn] [mapdamage] 01/01: add simple tests for examples

+9,10 @@ mapdamage (2.0.6+dfsg-2) UNRELEASED; urgency=medium * debhelper 10 * d/watch: version=4 - -- Andreas Tille <ti...@debian.org> Thu, 22 Dec 2016 16:27:05 +0100 + [ Nadiya Sitdykova ] + * Add simple tests for examples + + -- rovenskasa <rovensk...@gmail.com> Thu, 23

[med-svn] [mapdamage] branch master updated (30436da -> 6cfc176)

This is an automated email from the git hooks/post-receive script. rovenskasa-guest pushed a change to branch master in repository mapdamage. from 30436da add simple tests for examples new 6cfc176 moving pysam dependency The 1 revisions listed above as "new" are entirely new

[med-svn] [mapdamage] 01/01: moving pysam dependency

4 +1,4 @@ -mapdamage (2.0.6+dfsg-2.1) UNRELEASED; urgency=medium +mapdamage (2.0.6+dfsg-2.2) UNRELEASED; urgency=medium [ Andreas Tille ] * Add simple autopkgtest @@ -12,7 +12,10 @@ mapdamage (2.0.6+dfsg-2.1) UNRELEASED; urgency=medium [ Nadiya Sitdykova ] * Add simple tests for ex

[med-svn] [mapdamage] 02/02: add test to demonstrate problem with installing RccpGSL

LEASED; urgency=medium [ Nadiya Sitdykova ] * Add test checking stdin redirect - -- rovenskasa-guest <rovensk...@gmail.com> Thu, 23 Mar 2017 21:26:03 -0700 + [ Nadiya Sitdykova ] + * Add simple test to demonstrate the problems with installing r-cran-rcppgsl package + + -- rovenskasa-gu

[med-svn] [mapdamage] branch master updated (6cfc176 -> 8168fd4)

This is an automated email from the git hooks/post-receive script. rovenskasa-guest pushed a change to branch master in repository mapdamage. from 6cfc176 moving pysam dependency new 30b9e4e add stdin redirect check new 8168fd4 add test to demonstrate problem with

[med-svn] [mapdamage] 01/02: add stdin redirect check

(2.0.6+dfsg-2.2) UNRELEASED; urgency=medium +mapdamage (2.0.6+dfsg-2.3) UNRELEASED; urgency=medium [ Andreas Tille ] * Add simple autopkgtest @@ -15,7 +15,10 @@ mapdamage (2.0.6+dfsg-2.2) UNRELEASED; urgency=medium [ Nadiya Sitdykova ] * Move pysam dependency from tests/control to c

[med-svn] [mapdamage] branch master updated (f449dc0 -> 87bcc5a)

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[med-svn] [mapdamage] 02/03: add file with reference containing all types of nucleotides

This is an automated email from the git hooks/post-receive script. rovenskasa-guest pushed a commit to branch master in repository mapdamage. commit c07048d709919272b1608d81c2f5151fbb5d3c77 Author: Nadiya Sitdykova <rovensk...@gmail.com> Date: Wed Mar 29 18:49:14 2017 -0400 ad

[med-svn] [mapdamage] 01/03: add dependency providing liblapack.so and libblas.so

This is an automated email from the git hooks/post-receive script. rovenskasa-guest pushed a commit to branch master in repository mapdamage. commit de0dff8b452a653e8cce3f174f1f8d8017b05805 Author: Nadiya Sitdykova <rovensk...@gmail.com> Date: Wed Mar 29 18:47:59 2017 -0400 add depe

[med-svn] [mapdamage] 03/03: Merge branch 'master' of git+ssh://git.debian.org/git/debian-med/mapdamage

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[med-svn] [mapdamage] 02/03: Add information how to check R libraries and what to do in case of errors

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[med-svn] [mapdamage] 03/03: Revised simple tests for examples from documentation

This is an automated email from the git hooks/post-receive script. rovenskasa-guest pushed a commit to branch master in repository mapdamage. commit c0be20d8c2d6f7a5ab8daf526605e1ea97443f61 Author: Nadiya Sitdykova <rovensk...@gmail.com> Date: Wed Mar 29 21:17:12 2017 -0400 Revised

[med-svn] [mapdamage] 01/03: added changelog entries describing several latest commits

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[med-svn] [mapdamage] branch master updated (87bcc5a -> c0be20d)

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[med-svn] [mapdamage] branch master updated (c0be20d -> d03d5b5)

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[med-svn] [mapdamage] 01/01: fixed a typo in README.test

This is an automated email from the git hooks/post-receive script. rovenskasa-guest pushed a commit to branch master in repository mapdamage. commit d03d5b57761957fc710ff15c3a43713a6f4f51f0 Author: Nadiya Sitdykova <rovensk...@gmail.com> Date: Wed Mar 29 21:30:01 2017 -0400 fixed

[med-svn] [mapdamage] branch master updated (935164a -> 9f3d73d)

This is an automated email from the git hooks/post-receive script. rovenskasa-guest pushed a change to branch master in repository mapdamage. from 935164a fix name of the patch new 9f3d73d remove 01_fix_quantile_na_rm.patch The 1 revisions listed above as "new" are entirely

[med-svn] [mapdamage] 01/01: remove 01_fix_quantile_na_rm.patch

This is an automated email from the git hooks/post-receive script. rovenskasa-guest pushed a commit to branch master in repository mapdamage. commit 9f3d73dd0e25393be2143836dfd44a5226f5660a Author: Nadiya Sitdykova <rovensk...@gmail.com> Date: Wed Mar 29 01:03:03 2017 -0400

[med-svn] [mapdamage] branch master updated (f96109a -> 935164a)

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[med-svn] [mapdamage] 01/01: fix name of the patch

00..30d2ba6 --- /dev/null +++ b/debian/patches/fix_quantile_na_rm.patch @@ -0,0 +1,20 @@ +Author: Nadiya Sitdykova +Description: change calcSampleStats such as any NA and Nan's are + removed before quantiles are computed +Last-Update: 2017-03-28 + +Index: mapdamage/mapdamage/Rscripts/stats/func

[med-svn] [mapdamage] 01/01: add patch to fix quantile call to remove NA and NaNs

e mode 100644 index 000..30d2ba6 --- /dev/null +++ b/debian/patches/01_fix_quantile_na_rm.patch @@ -0,0 +1,20 @@ +Author: Nadiya Sitdykova +Description: change calcSampleStats such as any NA and Nan's are + removed before quantiles are computed +Last-Update: 2017-03-28 + +Index: mapdamage/map

[med-svn] [mapdamage] branch master updated (2ce3f10 -> f96109a)

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[med-svn] [picard-tools] branch master updated (da4d4de -> 5c268c4)

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[med-svn] [picard-tools] 01/01: add README.test

This is an automated email from the git hooks/post-receive script. rovenskasa-guest pushed a commit to branch master in repository picard-tools. commit 5c268c4a26324019d8b9b9ed8e31f7acc979c336 Author: Nadiya Sitdykova <rovensk...@gmail.com> Date: Fri Mar 31 01:32:02 2017 -0400

[med-svn] [mapdamage] 01/02: edit path to debian packaged seqtk

This is an automated email from the git hooks/post-receive script. rovenskasa-guest pushed a commit to branch master in repository mapdamage. commit 2c8a666ff5435814055790a1ca5592a9d396f7d9 Author: nadiya Date: Sat Mar 25 22:27:01 2017 -0400 edit path to debian packaged

[med-svn] [mapdamage] branch master updated (48d6370 -> 4359b66)

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[med-svn] [mapdamage] 02/02: fix type in tests/control

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[med-svn] [picard-tools] 01/01: Add simple autopkgtest test-suite

This is an automated email from the git hooks/post-receive script. rovenskasa-guest pushed a commit to branch master in repository picard-tools. commit 244c81e12aca5435ab1431c2135bcad1369239b1 Author: Nadiya Sitdykova <rovensk...@gmail.com> Date: Fri Mar 31 01:17:01 2017 -0400 Add

[med-svn] [picard-tools] branch master updated (7172e34 -> 244c81e)

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[med-svn] [picard-tools] 01/01: add bug closing to changelog

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[med-svn] [picard-tools] branch master updated (244c81e -> da4d4de)

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[med-svn] [picard-tools] branch master updated (5c268c4 -> 1e34030)

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[med-svn] [picard-tools] 01/01: add run-unit-test to docs

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[med-svn] [minia] branch master updated (e348bb6 -> 88e7b9c)

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[med-svn] [minia] 01/01: add autopkgtest test-suite

This is an automated email from the git hooks/post-receive script. rovenskasa-guest pushed a commit to branch master in repository minia. commit 88e7b9c1c91e6e66f76b6fcbfb7aa29958995630 Author: Nadiya Sitdykova <rovensk...@gmail.com> Date: Fri Aug 11 18:58:55 2017 -0400 add autop

[med-svn] r23894 - in trunk/packages/minia/trunk/debian: . tests

/changelog 2017-08-11 19:46:22 UTC (rev 23894) @@ -1,3 +1,12 @@ +minia (1.6906-2) UNRELEASED; urgency=medium + + * Team upload. + + [Nadiya Sitdykova] + * add autopkgtest test-suite + + -- Nadiya Sitdykova <rovensk...@gmail.com> Fri, 11 Aug 2017 18:40:04 -0400 + minia (1.6906-1) unstable; u

[med-svn] [kraken] 01/01: use jellyfish1

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[med-svn] [kraken] branch master updated (0c86900 -> 5af662a)

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[med-svn] [seqtk] branch master updated (5b3de0e -> f092542)

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[med-svn] [seqtk] 01/01: add autopkgtest test-suite

This is an automated email from the git hooks/post-receive script. rovenskasa-guest pushed a commit to branch master in repository seqtk. commit f09254245a4c86aa0e16c332ddeeaed8640053e6 Author: Nadiya Sitdykova <rovensk...@gmail.com> Date: Tue Jul 11 23:52:41 2017 -0400 add autop

[med-svn] [progressivemauve] 01/01: add autopkgtest test-suite

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[med-svn] [progressivemauve] branch master updated (0612bfc -> af0a8cb)

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

. + + [ Nadiya Sitdykova ] + * Add autopkgtest test-suite + + -- Nadiya Sitdykova <rovensk...@gmail.com> Thu, 06 Jul 2017 14:54:18 -0400 + probalign (1.4-5) unstable; urgency=medium * Fix homepage Modified: trunk/packages/probalign/trunk/debia

[med-svn] [kraken] branch master updated (2da699b -> 313ae32)

This is an automated email from the git hooks/post-receive script. rovenskasa-guest pushed a change to branch master in repository kraken. from 2da699b Added ref to OMICs, no fitting (\!) RRID available new afce20a add autpkgtest test-suite new 313ae32 add version of

[med-svn] [kraken] 02/02: add version of jellyfish dependency

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[med-svn] [tophat] 01/01: add autopkgtest test-suite

This is an automated email from the git hooks/post-receive script. rovenskasa-guest pushed a commit to branch master in repository tophat. commit b162b149e785ec816a1e3fff3d1608f509ed2e87 Author: Nadiya Sitdykova <rovensk...@gmail.com> Date: Fri Jul 14 21:20:49 2017 -0400 add autop

[med-svn] [tophat] branch master updated (64fe64b -> b162b14)

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[med-svn] [mrbayes] 02/02: add ssh dependency for mb-mpi

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[med-svn] [mrbayes] branch master updated (498caf6 -> 21102aa)

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[med-svn] [mrbayes] 01/02: add tests for mb-mpi

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[med-svn] r23881 - in trunk/packages/poa/trunk/debian: . tests tests/test_data

=== --- trunk/packages/poa/trunk/debian/changelog 2017-07-20 11:45:30 UTC (rev 23880) +++ trunk/packages/poa/trunk/debian/changelog 2017-07-21 01:07:36 UTC (rev 23881) @@ -1,3 +1,12 @@ +poa (2.0+20060928-5) UNRELEASED; urgency=medium + + * Team upload. + + [ Nadiya Sitdykova

[med-svn] [mrbayes] branch master updated (ba89dd4 -> a1acd67)

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[med-svn] [mrbayes] 01/01: add autopkgtest test-suite

This is an automated email from the git hooks/post-receive script. rovenskasa-guest pushed a commit to branch master in repository mrbayes. commit a1acd671d2cd22af678ad0874a05078689d26d89 Author: Nadiya Sitdykova <rovensk...@gmail.com> Date: Wed Jul 19 23:42:03 2017 -0400 add autop

[med-svn] [fasttree] branch master updated (50ca9a1 -> d240c40)

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[med-svn] [fasttree] 01/01: add autopkgtest test-suite

This is an automated email from the git hooks/post-receive script. rovenskasa-guest pushed a commit to branch master in repository fasttree. commit d240c406318229e2fe23fb85c087ce26a12ecb35 Author: Nadiya Sitdykova <rovensk...@gmail.com> Date: Wed Jun 28 17:39:24 2017 -0400 add autop

[med-svn] [abyss] branch master updated (e62d78a -> d5fe977)

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[med-svn] [bwa] branch master updated (472cb39 -> 521729b)

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[med-svn] [bwa] branch master updated (a103fbf -> 8a74ee9)

This is an automated email from the git hooks/post-receive script. rovenskasa-guest pushed a change to branch master in repository bwa. from a103fbf Added ref to bio.tools/tools/BWA new 0d751fa remove workaround fix new 7722b0f add patch to check avg and std for nan

[med-svn] [bwa] 02/03: add patch to check avg and std for nan

This is an automated email from the git hooks/post-receive script. rovenskasa-guest pushed a commit to branch master in repository bwa. commit 7722b0f5bb0e2f1d4ceea9ce0f2c6f695969995b Author: Nadiya Sitdykova <rovensk...@gmail.com> Date: Mon Jul 3 21:29:56 2017 -0400 add patch to

[med-svn] [bwa] 03/03: add patch with pringting of unsigned counts

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[med-svn] [bwa] 01/03: remove workaround fix

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[med-svn] [ray] 01/01: allow mpi work without ssh dependency

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[med-svn] [ray] branch master updated (2f561f1 -> 37a6c2e)

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[med-svn] [trimmomatic] branch master updated (12cddde -> 39e1545)

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[med-svn] [ray] 02/02: add ssh dependency

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[med-svn] [ray] branch master updated (a55e377 -> 52ea395)

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[med-svn] [trimmomatic] 03/03: add to changelog addition of info about test_data

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[med-svn] [trimmomatic] 02/03: Merge branch 'master' of git+ssh://git.debian.org/git/debian-med/trimmomatic

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[med-svn] [trimmomatic] branch master updated (d553098 -> 72c1e85)

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[med-svn] [trimmomatic] 01/03: add information about test_data

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[med-svn] [bamtools] branch master updated (2414797 -> 9399368)

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[med-svn] [bamtools] 01/01: add autopkgtest test-suite

This is an automated email from the git hooks/post-receive script. rovenskasa-guest pushed a commit to branch master in repository bamtools. commit 93993686502bad3bf2056549c1479c156bc42fe0 Author: Nadiya Sitdykova <rovensk...@gmail.com> Date: Mon Aug 7 17:03:30 2017 -0400 add autop

[med-svn] [parsinsert] 01/01: add info about source of test data

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[med-svn] [parsinsert] branch master updated (f9f23dd -> ba0a858)

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[med-svn] [mira] branch master updated (5c8a0f1 -> 68a9e3d)

This is an automated email from the git hooks/post-receive script. rovenskasa-guest pushed a change to branch master in repository mira. from 5c8a0f1 Added RRID for mira new 68a9e3d add test-suite for denovo, mapping, est assembly The 1 revisions listed above as "new" are

[med-svn] [mothur] branch master updated (21913bf -> 740b98f)

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[med-svn] r23784 - in trunk/packages/proda/trunk/debian: . tests

23783) +++ trunk/packages/proda/trunk/debian/changelog 2017-06-07 01:18:59 UTC (rev 23784) @@ -1,3 +1,12 @@ +proda (1.0-11) unstable; urgency=medium + + * Team upload. + + [ Nadiya Sitdykova] + * Add autopkgtest test-suite + + -- Nadiya Sitdykova <rovensk...@gmail.com> Tue, 06 Jun 2017 20

[med-svn] [last-align] 01/01: add autopkgtest test-suite

. diff --git a/debian/changelog b/debian/changelog index 82aeb38..b94a40e 100644 --- a/debian/changelog +++ b/debian/changelog @@ -1,3 +1,12 @@ +last-align (830-2) unstable; urgency=low + + * Team upload. + + [ Nadiya Sitdykova ] + * Add autopkgtest test-suite + + -- Nadiya Sitdykova &l

[med-svn] [last-align] branch master updated (b51ee81 -> 4b823e3)

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[med-svn] r23826 - in trunk/packages/python-cogent/trunk/debian: . tests

ges/python-cogent/trunk/debian/changelog 2017-06-16 06:41:21 UTC (rev 23826) @@ -1,3 +1,12 @@ +python-cogent (1.9-10) UNRELEASED; urgency=medium + + * Team upload. + + [Nadiya Sitdykova] + * Add autopkgtest test-suite (without tests known to fail) + + -- Naidya Sitdykova <rovensk...@gmail.com&

[med-svn] [fastx-toolkit] 01/01: add autopkgtest test-suite

This is an automated email from the git hooks/post-receive script. rovenskasa-guest pushed a commit to branch master in repository fastx-toolkit. commit 9213857d319f9390e6647260411f36715b67326f Author: Nadiya Sitdykova <rovensk...@gmail.com> Date: Mon Jun 5 18:18:31 2017 -0400

[med-svn] [fastx-toolkit] branch master updated (de56872 -> 9213857)

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[med-svn] [fastx-toolkit] branch master updated (9213857 -> e15a1b1)

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[med-svn] [fastx-toolkit] 01/01: add tests for fastx_quality_stats and fastq_quality_filter

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[med-svn] [fastx-toolkit] 02/03: additional tests

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[med-svn] [fastx-toolkit] branch master updated (e15a1b1 -> c9d74e7)

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[med-svn] [fastx-toolkit] 03/03: add patch to explain -Q option

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[med-svn] [fastx-toolkit] 01/03: fix typos in fastq_quality_filter test

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[med-svn] [grinder] branch master updated (38c3d3d -> 97b37fe)

This is an automated email from the git hooks/post-receive script. rovenskasa-guest pushed a change to branch master in repository grinder. from 38c3d3d Added references to OMICtools and RRID new 0f22eaf fix problem with rebuilding of package new 97b37fe add

[med-svn] [grinder] 02/02: add autopkgtest test-suite

This is an automated email from the git hooks/post-receive script. rovenskasa-guest pushed a commit to branch master in repository grinder. commit 97b37fed388b6e38b8b79b71d993d5c4ddc4778c Author: Nadiya Sitdykova <rovensk...@gmail.com> Date: Mon Aug 21 17:57:35 2017 -0400 add autop

[med-svn] [grinder] 01/02: fix problem with rebuilding of package

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[med-svn] r23925 - in trunk/packages/cassiopee/trunk/debian: . tests

/packages/cassiopee/trunk/debian/changelog 2017-08-24 00:54:43 UTC (rev 23925) @@ -1,3 +1,12 @@ +cassiopee (1.0.5-2) UNRELEASED; urgency=medium + + * Team upload. + + [ Nadiya Sitdykova ] + * add autopkgtest test + + -- Nadiya Sitdykova <rovensk...@gmail.com> Wed, 23 Aug 2017 20

[med-svn] [tophat] branch master updated (b204357 -> 55b308b)

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[med-svn] [tophat] 01/01: add info about source of test_data

This is an automated email from the git hooks/post-receive script. rovenskasa-guest pushed a commit to branch master in repository tophat. commit 55b308bbbfc6fa2beb74ae89ef854f793b78b954 Author: Nadiya Sitdykova <rovensk...@gmail.com> Date: Wed Oct 11 19:12:45 2017 -0400 add info

[med-svn] [gatb-core] branch master created (now e3c8b5c)

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