Andreas Heger

Thanks. More info about point 4: pysam depends on the samtools code, which is distributed and compiled alongside pysam. The samtools executable itself is not built. There is no dependency...

Really great work on the logging, and thanks, that would help pysam a lot.

The lines that @jmarshall identified can definitely go, they were used to auto-detect SAM or BAM in early versions of samtools. Will do this before the - very imminent -...

Good question. From memory, I think percent_overlap_size_track is the proportion of nucleotides in 'segments' that overlap annotations within the workspace. It might well be a bug, are your segments non-overlapping?...

Hi, thanks, indeed, "transpose" was not working. It now will transpose the dataframe. I have pushed the latest changes, let me know if it works! Best wishes, Andreas On 12/02/14...

Hi @WestFlame, thanks, that is new, sorry for your troubles. Does it only happen with the "transpose" flag? Do you get the same error when running it from the command...

Thanks! I will follow this up. Best wishes, Andreas P.S. Do you find CGATReport useful? We are using it heavily within our group (10 people) but we don't have much...