Re: [galaxy-user] Install Galaxy on Mac

2012-08-10 Thread Edward Turk
prompt$ hg help >> >> The "quick start" and "guide" at http://mercurial.selenic.com/ is a good >> place for basic hg commands. A web search will return plenty of other >> choices. >> >> This is the last email in this thread I think we shoul

Re: [galaxy-user] Install Galaxy on Mac

2012-08-10 Thread Edward Turk
ands. A web search will return plenty of other >> choices. >> >> This is the last email in this thread I think we should send to both >> lists - from here forward let's just cc to galaxy-...@bx.psu.edu for >> follow-up and leave the user list off - no need to post to

Re: [galaxy-user] Install Galaxy on Mac

2012-08-10 Thread Edward Turk
ight now). So, otherwise the MAC install should be fine. > > Maybe this helps? > > Jen > Galaxy team > > On 8/10/12 8:00 AM, Edward Turk wrote: >> Both responses worked for checking python version, but trying to >> download gave an error: >> >> Instal

Re: [galaxy-user] Install Galaxy on Mac

2012-08-10 Thread Edward Turk
.bx.psu.edu/Admin/Get%20Galaxy > > > WRT checking the python version: > > just type 'python -V' on the command line, eg on my old MacBook: > > bash-3.2$ python -V > Python 2.5.1 > bash-3.2$ > > > Hope this helps > Regards, Hans > > > >

[galaxy-user] Install Galaxy on Mac

2012-08-10 Thread Edward Turk
Hello, Could someone provide instructions for installing galaxy on a Mac OS 10.7? The instructions provided by galaxy start off by asking me to check my python version, but I don't know how to do that. I figure someone has step-by-step instructions or a screen cast? Thank you, Edward ___

Re: [galaxy-user] Merge FASTQ Databases

2011-12-27 Thread Edward Turk
want to conacatenate the fastq files (I assume that is what you > mean) you can do that using the text manipulation tools: concatenate datasets > tail-to-head. > Good luck. > Alex > > > Van: galaxy-user-boun...@lists.bx.psu.edu &g

[galaxy-user] Merge FASTQ Databases

2011-12-23 Thread Edward Turk
Hi Galaxy Users, Can FASTQ Databases be merged using Galaxy? Thanks, Edward ___ The Galaxy User list should be used for the discussion of Galaxy analysis and other features on the public server at usegalaxy.org. Please keep all replies on t

[galaxy-user] Filter out Positive Strand

2011-08-13 Thread Edward Turk
Hello all, I have used Tophat to map and now I want to filter out all reads that mapped to the positive strand. Any help would be greatly appreciated. Thanks, Edward Turk ___ The Galaxy User list should be used for the discussion of

Re: [galaxy-user] Yeast Genome Assembly

2011-06-29 Thread Edward Turk
in Trackster ("Visualization" at Galaxy is a great > alternative. > > Hopefully this helps, > > Jen > Galaxy team > > > On 6/24/11 8:40 AM, Edward Turk wrote: >> For yeast analysis I use the following assembly: S. cerevisiae June 2008 >> (SGD/sacCer2) (sa

[galaxy-user] Yeast Genome Assembly

2011-06-24 Thread Edward Turk
For yeast analysis I use the following assembly: S. cerevisiae June 2008 (SGD/sacCer2) (sacCer2). Recently a new yeast genome has appeared as an option in Galaxy: S. cerevisae str. S288C (Saccharomyces_cerevisiae_S288C_SGD2010). Is this an update to sacCer2? Where is it coming from? I don't see