Thomas Zichner
Thomas Zichner
Hi, It would indeed be great if bpipe supports CWL. Is this planned for one of the next releases? Regards, Thomas
In order to assess whether a certain stage has already run, bpipe checks whether all output files created by that stage are already present (and whether the file modification date...
Can you please upload the config file you used and post the command you use to run the pipeline. This might help to identify the problem. Thanks!
Thanks for the files. I am currently looking into the issue. Can you please also post the full program output (including the part before the error). Thanks.
The fact that your output says `Primers to test: 0` indicates that there might have been a problem with the primer3 step and therefore, no primers were predicted. Was there...
The full output shows that the BLAST step (checking whether primers are unique) is not working. As a consequence, the results you get are not correct (the primers are valid...
When you use a docker container and want to access files from your normal file system, you have to map a directory of your file system to a directory inside...
The log file you sent seems ok. To be sure that the predicted primers are correct, you can blast/blat a few of them by hand to check whether they map...
I am experience the same issue. Are their any workarounds or ways to fix this? Thanks