Hi Galt, thank you for fixing it :-). In case that the fixed version of bedToBigBed won't be put on http://hgdownload.cse.ucsc.edu/admin/exe/linux.x86_64/ in the near future, could you send it to me as soon as it is available?
Thomas Am 27.07.2012 01:42, schrieb Galt Barber: > Hi, Thomas! > > You have indeed uncovered a little bug and we shall have a fix soon. > > Thank you very much for reporting it! > > -Galt > > On Wed, Jul 25, 2012 at 2:02 AM, Thomas Blank > <[email protected] <mailto:[email protected]>> wrote: > > Hi Galt, > > the input file I have troubles with is actually quite small, only > 5.1K. It's attached. > The thing is, when I delete the last region from the file then it > works, but I can't see anything wrong with the last region and > bedToBigBed doesn't complain either, it just keeps running. > (command: ./bedToBigBed infinite_loop.bed hsa_chromosome_sizes.txt > out.bb <http://out.bb>) > > Regards, > > Thomas > > > Am 25.07.2012 03 <tel:25.07.2012%2003>:08, schrieb Galt Barber: >> Hi, Thomas! >> >> You can send it to me: galt soe.ucsc.edu <http://soe.ucsc.edu> >> >> It won't receive attachments over 25MB. >> If you can put it on some server and send me the URL, >> that would be helpful. >> >> -Galt >> >> On Tue, Jul 24, 2012 at 5:47 AM, Thomas Blank >> <[email protected] <mailto:[email protected]>> wrote: >> >> Hello, >> >> I tried to convert a BED file into a bigBed file using the >> bedToBigBed >> executable from >> http://hgdownload.cse.ucsc.edu/admin/exe/linux.x86_64/, >> but bedToBigBed doesn't return a result it just keeps >> running. When >> using other input data it works fine. Can someone take a look >> at this? >> (To whom shall I send the input BED file? Sending it to the >> mailing list >> wouldn't work, would it?) >> >> Regards, >> >> -- >> Thomas Blank >> Genomatix Software GmbH >> Bayerstr. 85a >> 80335 Muenchen/Germany >> phone: +49 89 599766-0 <tel:%2B49%2089%20599766-0> >> http://www.genomatix.de >> Legal information: HRB 117956, Amtsgericht Muenchen; Tax-ID: >> DE 189568720 >> Managing Directors: Dr. Matthias Scherf (COO), Dr. Martin >> Seifert (CEO) >> >> _______________________________________________ >> Genome maillist - [email protected] >> <mailto:[email protected]> >> https://lists.soe.ucsc.edu/mailman/listinfo/genome >> >> > > > -- > Thomas Blank > Genomatix Software GmbH > Bayerstr. 85a > 80335 Muenchen/Germany > phone:+49 89 599766-0 <tel:%2B49%2089%20599766-0> > http://www.genomatix.de > Legal information: HRB 117956, Amtsgericht Muenchen; Tax-ID: DE 189568720 > Managing Directors: Dr. Matthias Scherf (COO), Dr. Martin Seifert (CEO) > > -- Thomas Blank Genomatix Software GmbH Bayerstr. 85a 80335 Muenchen/Germany phone: +49 89 599766-0 http://www.genomatix.de Legal information: HRB 117956, Amtsgericht Muenchen; Tax-ID: DE 189568720 Managing Directors: Dr. Matthias Scherf (COO), Dr. Martin Seifert (CEO) _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
