Ambarish Kumar

Sir, I have run cwl-format on each of the tools.

GATK4 CreateSequenceDictionary tool - ReferenceSeqDictionaryDocker.cwl is generating error. Error is below. ```` ngsap2@ubuntu:~$ sudo docker run -v /var/run/docker.sock:/var/run/docker.sock -v "$PWD":"$PWD" -w="$PWD" commonworkflowlanguage/cwltool /home/ngsap2/GATK4Docker/ReferenceSeqDictionaryDockerNew.cwl --docker broadinstitute/gatk --ReferenceGenome /home/ngsap2/Downloads/testdata16march/ebola_ref.fasta --sampleName eb --gatk_path...

I am working over Ubuntu 16.04 and Python 3.5 I am getting an error while installation. ```` error: The 'setuptools>=40.0' distribution was not found and is required by the application...

One more error while running cwl2wdl command. ```` cwl_input['id'].strip("#") TypeError: string indices must be integers ````

Sir. each time while running the workflow I have to set both ones. What I wanted to fix or hard-code at the time of workflow formation. But it does not...

One more error related DESeq2 is there. I am trying to get differential expression of genes across four SRR accessions. Lets say SRR1*****, SRR2*****, SRR3***** and SRR4*****. But DESeq2 asks...

I am using Crome. I saved the workflow with both the parameters. It works now. Thank you so much. For DESeq2, how to do analysis in ipython notebook?

Sir, volunteering the event will be happy moment for me. You may tell me any thing to perform at any time. As you feel convenient.

# 20190911 Sir, - I have test-run (ami3) ami-search over CProject - oil186. - narrative of slides of XML summer school is really very good and points-out the need, importance...

# 20190912 - build ami3 ``` $ mvn install -Dmaven.test.skip=true ``` ``` [INFO] ------------------------------------------------------------------------ [INFO] BUILD SUCCESS [INFO] ------------------------------------------------------------------------ [INFO] Total time: 01:10 min [INFO] Finished at: 2019-09-12T11:34:29+05:30 [INFO] ------------------------------------------------------------------------...