Hi, Thomas! The fixed version is now available at:
http://hgdownload.cse.ucsc.edu/admin/exe/linux.x86_64/bedToBigBed Thanks again for reporting it and providing an easy test-case. -Galt On Fri, Jul 27, 2012 at 9:00 AM, Thomas Blank <[email protected]>wrote: > 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]>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) >> >> Regards, >> >> Thomas >> >> >> Am 25.07.2012 03:08, schrieb Galt Barber: >> >> Hi, Thomas! >> >> You can send it to me: galt 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]>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 <%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] >>> https://lists.soe.ucsc.edu/mailman/listinfo/genome >>> >> >> >> >> -- >> Thomas Blank >> Genomatix Software GmbH >> Bayerstr. 85a >> 80335 Muenchen/Germany >> phone: +49 89 599766-0http://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 599766-0http://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
