Former User of DNAx Community_46
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Recent activity by Former User of DNAx Community_46
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OK, here is a working solution Using the WDL keyword `directory ` was a bad choice. A better solution was to use a String containing the path to the directory and to call `dx find data` to get a ...
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Thanks, I'll try this tomorrow. But then, in `Array[String] files |` I'll get a list of file-id , say the IDs of VCF files. How will I give those ID to bcftools ? ```bcftools view 'dx:PROJ...
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yes the code is compiled and launched. But it fails when the directory is used. For now I tried to put a string as the value of "dir_name" in the JSON file.I'll try without json tomorrow. For now,...
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thanks. No I tried various things like "dx:..." but it doesn't work on my side.
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I got another answer from the support. Here is a snapshot of the answer: > In order to distinguish between inputs related only to a particular stage and whole workflow, stage-common "prefix" is us...
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also , the answer to the original question was to switch the WDL version to `2.0` . ````version 2.0 workflow MY_WORKFLOW { input { Directory dir(...)```
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setting a plain path such as `/Bulk/Whole genome sequences/`, quoted, doesn't work (no such file or directory)
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Thanks for your anwers. Based on your answers for my other questions, I'll first have a look at the nextflow importer before trying to do anything with WDL.
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The following code worked: ``` runtime { cpu : 1 memory : "1GB" docker: "quay.io/biocontainers/bcftools:1.16--hfe4b78e_1" }``` (Thanks to the B Slavik / UK...
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I switched back the version from 1.1 to 1.0, same error: dxpy.exceptions.InvalidInput: i/o value bed needs to be given using DNAnexus links.
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