Emil Furat

1. Community
2. General Discussion
3. how to view WDL output string in Terra?

Hi Stephanie,   Thanks for reaching out. The outputs from your workflows are written to the Google bucket associated with your workspace. In order to find the output for a specific workflow/task yo...

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• October 29, 2021 13:45
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1. Community
2. General Discussion
3. Issue with accessing the external bucket for ImportGVCFs task in GATK joint-genotyping workflow

Hi Zih-Hua,   We've taken a closer look at your submissions, immediately we realized that the number of samples for each job was very large (10,000+). We haven't been able to pinpoint exactly what ...

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• October 28, 2021 20:47
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1. Community
2. Featured Workspace Help
3. ExomeGermlineSingleSample fails

Hi Mat,   Glad to hear! As always, if you have any other questions please let us know.   Kind regards, Emil  

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• October 28, 2021 19:57
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1. Community
2. Featured Workspace Help
3. ExomeGermlineSingleSample fails

Hi Mat,    We haven't heard from you in a couple of days so I just wanted to check-in and see how things are going. Have you had any luck using the re-configured data tables/workflow we shared with...

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• October 27, 2021 17:12
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1. Community
2. General Discussion
3. hg19 and hg38 TCGA workspaces

Hi Maha,   We haven't heard from you in a couple of days so I just wanted to check-in and see how things were going. Have you been able to find a TCGA workspace that suits your needs? If you have a...

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• October 27, 2021 17:08
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1. Community
2. General Discussion
3. Unable to determine reason for Mutect2 failure in Terra from log file

Hi Elise,   Thanks for reaching out! We are going to look into this issue now and let you know once we have more details.   Kind regards, Emil

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• October 26, 2021 20:15
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1. Community
2. General Discussion
3. Increasing disk size on attached persistent disk does not increase space on /home/jupyter/notebooks

Hi Sabrina,   We have looked into this some more and were not able to consistently replicate the issue you encountered - it appears to have been a transient. Let us know if you experience this issu...

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• October 26, 2021 19:38
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1. Community
2. General Discussion
3. Issue with accessing the external bucket for ImportGVCFs task in GATK joint-genotyping workflow

Hi Zih-Hua,   Sorry for the delay getting back to you. Can you share the workspace where you are seeing this issue with GROUP_FireCloud-Support@firecloud.org by clicking the Share button in your wo...

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• October 26, 2021 15:16
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1. Community
2. General Discussion
3. hg19 and hg38 TCGA workspaces

Hi Maha,   We have regained our TCGA access and were able to take a closer look at your workspace, we can confirm that there is not a column for BAM files anywhere in your data tables. We also noti...

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• October 25, 2021 15:51
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1. Community
2. General Discussion
3. Increasing disk size on attached persistent disk does not increase space on /home/jupyter/notebooks

Hi Sabrina,   I'm glad to hear that you were able to get your Cloud Environment updated! I did some testing and can confirm that the Cloud Environment PD does not update immediately, even after pau...

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• October 25, 2021 15:30
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