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commit ee740aee58205aa76e126aab0d0551ac4aa62d3f Author: latticetower-guest <[email protected]> Date: Fri Jun 10 23:17:25 2016 +0000 add README for testsuite --- debian/README.test | 37 +++++++++++++++++++++++++++++++++++++ debian/changelog | 1 + debian/docs | 2 ++ 3 files changed, 40 insertions(+) diff --git a/debian/README.test b/debian/README.test new file mode 100644 index 0000000..2cc8bb0 --- /dev/null +++ b/debian/README.test @@ -0,0 +1,37 @@ +Notes on how this package can be tested. +──────────────────────────────────────── + +This package can be tested by executing + + sh installation-test + +in order to confirm its integrity. + +Package contains 2 executable files - TMalign and TMscore. +Both are called in `installation-test` script. + +To test manually, cd to some dir, where you have write permissions and do + + cp -a /usr/share/doc/profbval/examples/* . + gunzip 1ni7.pdb.gz 5eep.pdb.gz + +Then run + TMalign 1ni7.pdb 5eep.pdb +or + TMscore 1ni7.pdb 5eep.pdb + +PDB structure files for this testsuite were picked randomly from RCSB PDB +database [1], based on sequence similarity (first I picked random protein +with 1 chain, then found similar structure with "Sequence Similarity Cutoff" +at level 95%). As a result, they have TM-score metric > 0.8. + +By default, TM-align page [2] suggests for comparison pair of protein +structures with PDB ID "101m" and "1mba" - you can also run TMalign +with these two structures and compare your results with those stated +at Zhang Lab's site. + +References: +[1]: RCSB PDB database + http://www.rcsb.org +[2]: TM-align page at Zhang Lab's site + http://zhanglab.ccmb.med.umich.edu/TM-align/ diff --git a/debian/changelog b/debian/changelog index e6770f2..585b3d3 100644 --- a/debian/changelog +++ b/debian/changelog @@ -4,6 +4,7 @@ tm-align (20160521+dfsg-2) UNRELEASED; urgency=medium * fix typo in package's description in d/control * add example gzipped protein structures+mention them in d/source/binaries * add testsuite + * add README.test for testsuite -- Tatiana Malygina <[email protected]> Fri, 10 Jun 2016 22:12:31 +0000 diff --git a/debian/docs b/debian/docs new file mode 100644 index 0000000..7cf93c4 --- /dev/null +++ b/debian/docs @@ -0,0 +1,2 @@ +debian/tests/installation-test +debian/README.test -- Alioth's /usr/local/bin/git-commit-notice on /srv/git.debian.org/git/debian-med/tm-align.git _______________________________________________ debian-med-commit mailing list [email protected] http://lists.alioth.debian.org/cgi-bin/mailman/listinfo/debian-med-commit
