Closed JoaquinArino closed 11 years ago
Thanks for the report. This is actually already fixed in the master branch, just hasn't been released yet.
Great!. Thank you very much. Joaquin
El 05/04/2013 15:45, Jacob Silterra escribió:
Thanks for the report. This is actually already fixed in the master branch, just hasn't been released yet.
— Reply to this email directly or view it on GitHub https://github.com/broadinstitute/IGV/issues/40#issuecomment-15956309.
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Dr. Joaquin Arino Yeast Molecular Biology Laboratory Institut de Biotecnología i Biomedicina Dept. Bioquimica y Biologia Molecular Universitat Autonoma Barcelona Cerdanyola del Vallès 08193, Barcelona, Spain Phone: 34-93-5812182 FAX: 34-93-5812011 WEB: http://grupsderecerca.uab.cat/gbml/es
Dear colleagues, I started using IGV a few weks ago and recently started using the IGV tools "Sort" from the IGV interface (version 2.2.13). I observe what it seems to be a bug in the proposed path for the output file. For instance, if I select as input file
E:\bowtie2-2.1.0\ChiP01\SAMs\B1.sam the automatic output selection is:
E:\bowtie2-2.sorted.1.0\ChiP01\SAMs\B1.sam Note that this output path refers to a non-existent folder (bowtie2-2.sorted.1.0). If I accept this the system throws an exception when starts running. It seems that the word "sorted" should be placed in the file name (i.e. B1_sorted.sam). If I do this manually , it works. This is not an enormous problem, but it takes a while before one realizes the origin of the trouble (particularly if you are not an expert, as it is my case) and complicates handling of many files. I trust it should be not difficult for you to solve. On the other hand, I congratulate you for this excellent and extremely useful piece of software. Sincerely, Joaquin Arino