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3. WDL function read_string() not properly delocalizing paths as files

Hi James, Many thanks—I was getting a message that the snapshot had been removed or that I didn't have access. I have access now after being added. Kind regards, Jason

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• Jason Cerrato
• April 08, 2020 15:53
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3. WDL function read_string() not properly delocalizing paths as files

Hi James, Would you be willing to share dropseq_cumulus with jcerrato@broadinstitute.org so I can take a closer look at versions 1 and 11? Kind regards, Jason

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• Jason Cerrato
• April 08, 2020 15:34
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3. Job status is slow to update

Hi Sonia Moreno, Thank you for reporting this issue. Can you share the workspace where you are seeing this issue with GROUP_FireCloud-Support@firecloud.org by clicking the Share button in your work...

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• Jason Cerrato
• April 07, 2020 17:32
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3. Permissions error when trying to run workflow in Terra

Hi Andrew, Would you be willing to share the adunford/bsmap_to_mcall/1 workflow with me so I can see if I am able to replicate this in a clone? Kind regards, Jason

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• Jason Cerrato
• April 07, 2020 17:30
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3. WDL function read_string() not properly delocalizing paths as files

Hi James, I'm still having some difficulty finding this exact line in your job submission ID 469a9ccb-43c5-46e5-8f35-a8827a345735, where it claims to delocalize to gs://fc-secure-ec2ce7e8-339a-47b4...

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• Jason Cerrato
• April 07, 2020 14:06
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3. WDL function read_string() not properly delocalizing paths as files

Hi James, Thank you for letting us know that you have found a solution. I will pass the information from your original post on to our workflow engineers for investigation. Kind regards, Jason

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• Jason Cerrato
• April 06, 2020 20:38
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3. Permissions error when trying to run workflow in Terra

Hi Andrew, We're happy to take a closer look at this. Can you share the broad-firecloud-wupo1/CLL1085_RRBS2 workspace where you are seeing this issue with GROUP_FireCloud-Support@firecloud.org by c...

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• Jason Cerrato
• April 06, 2020 19:38
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3. GenotypeGVCFs error; A USER ERROR has occurred: use-new-qual-calculator is not a recognized option

Hi Sam, Have you made any modifications to the cloned workflow? The WDL shows that GATK ver 4.1.4.0 is being used for the workflow, and as such appears to be designed for use with this particular v...

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• Jason Cerrato
• April 06, 2020 18:48
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3. WDL function read_string() not properly delocalizing paths as files

Hi James, Is this metadata.txt file something that's generated in the workflow, or is it a file you already have? Can you point me to where this file is generated/already exists? Can you also clari...

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• Jason Cerrato
• April 06, 2020 17:43
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