Hello Andreas, I commit Cd-Hit according to it's manual but these example codes did not work also there is no command like cd-hit when i install the program. So as you say i commit it with errors in test so we can figure it our together .
Best Regards Canberk Koç [image: https://]about.me/canberkkoc <https://about.me/canberkkoc?promo=email_sig&utm_source=email_sig&utm_medium=email_sig&utm_campaign=external_links> 2016-08-09 10:59 GMT+03:00 Canberk Koç <[email protected]>: > Hello Andreas, > > I'll gladly do tests and keep going before end of the year i think we can > manage to cover most of packages. Tools6 issue i'll make partial test to > blast2 and binaries packages in it if i stuck i'll inform you again i am > going on. Thanks for help. > > Best Regards > > > > Canberk Koç > [image: https://]about.me/canberkkoc > > <https://about.me/canberkkoc?promo=email_sig&utm_source=email_sig&utm_medium=email_sig&utm_campaign=external_links> > > 2016-08-09 9:38 GMT+03:00 Andreas Tille <[email protected]>: > >> Hi Canberk, >> >> On Tue, Aug 09, 2016 at 07:46:26AM +0300, Canberk Koç wrote: >> > I make a little test for Emboss. >> > I found there is a test directory in this package but tests are not >> > complete i think , >> > make check did not do anything useful so they will add tests to the >> > package i assume . >> >> OK, having at least some partial test is better than no test at all. >> >> Where the hints for ncbi-tools6 by Aaron and me helpful? >> >> > Another issue GSoC send me an email again and final evaluation is on 15 >> > august for students so i'll send them commits how is our progress you >> think >> > ? >> >> I admit I would have hoped that we would manage more packages at the end >> but the second half went better than the first. It would be great if >> you could keep on adding tests even after GSoC has finished and we might >> manage to get tests for most of the Debian Med packages until Freeze for >> Debian 9 (about end of the year). >> >> > I have a question also how can i find which packages i committed with a >> > script what should i use ? >> >> You could query the public UDD mirror via >> >> PGPASSWORD="public-udd-mirror" psql --host=public-udd-mirror.xvm.m >> it.edu --username=public-udd-mirror udd >> >> The following query is an example how to get those packages featuring >> you as changelog owner and adding the Vcs URL in Git. >> >> udd=> SELECT DISTINCT u.source, u.version, s.vcs_url FROM upload_history >> u JOIN sources s ON u.source = s.source WHERE changed_by_email = ' >> [email protected]' and s.release='sid' and s.vcs_url not like 'svn%' >> order by u.source ; >> source | version | vcs_url >> -------------+-------------------+-------------------------- >> ----------------------------------------------- >> amap-align | 2.2-6 | https://anonscm.debian.org/git >> /debian-med/amap-align.git >> bwa | 0.7.15-2 | https://anonscm.debian.org/git >> /debian-med/bwa.git >> clustalo | 1.2.2-1 | https://anonscm.debian.org/git >> /debian-med/clustalo.git >> clustalw | 2.1+lgpl-5 | https://anonscm.debian.org/git >> /debian-med/clustalw.git >> dialign | 2.2.1-8 | https://anonscm.debian.org/git >> /debian-med/dialign.git >> exonerate | 2.4.0-2 | https://anonscm.debian.org/git >> /debian-med/exonerate.git >> fastqc | 0.11.5+dfsg-3 | https://anonscm.debian.org/git >> /debian-med/fastqc.git >> gdpc | 2.2.5-6 | https://anonscm.debian.org/git >> /debian-med/gdpc.git >> hmmer | 3.1b2+dfsg-1 | https://anonscm.debian.org/git >> /debian-med/hmmer.git >> hmmer2 | 2.3.2-10 | https://anonscm.debian.org/git >> /debian-med/hmmer2.git >> htslib | 1.3.1-2 | https://anonscm.debian.org/git >> /debian-med/htslib.git >> infernal | 1.1.1-5 | https://anonscm.debian.org/git >> /debian-med/infernal.git >> kalign | 1:2.03+20110620-3 | https://anonscm.debian.org/git >> /debian-med/kalign.git >> mummer | 3.23+dfsg-1 | https://anonscm.debian.org/git >> /debian-med/mummer.git >> muscle | 1:3.8.31+dfsg-2 | https://anonscm.debian.org/git >> /debian-med/muscle.git >> ncbi-blast+ | 2.3.0-2 | https://anonscm.debian.org/git >> /debian-med/ncbi-blast+.git >> phylip | 1:3.696+dfsg-3 | https://anonscm.debian.org/git >> /debian-med/phylip.git >> primer3 | 2.3.7-2 | https://anonscm.debian.org/git >> /debian-med/primer3.git >> probcons | 1.12-11 | https://anonscm.debian.org/git >> /debian-med/probcons.git >> t-coffee | 11.00.8cbe486-4 | https://anonscm.debian.org/git >> /debian-med/t-coffee.git >> vcftools | 0.1.14+dfsg-3 | https://anonscm.debian.org/git >> /debian-med/vcftools.git >> (21 Zeilen) >> >> > Thanks for your help and support. >> >> You are welcome. >> >> Updated todo list: >> >> ncbi-tools6 >> njplot (according to manual there is an option without X11, >> -> https://anonscm.debian.org/git/debian-med/njplot.git >> picard-tools >> cd-hit >> tigr-glimmer >> >> Kind regards >> >> Andreas. >> >> -- >> http://fam-tille.de >> > >
