Andrew Davidson

Member since March 13, 2021 22:58

Total activity 106

Last activity March 06, 2023 23:16

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Activity overview

Latest activity by Andrew Davidson

Andrew Davidson commented, June 06, 2022 21:42
https://support.terra.bio/api/repository/v1/datasets/%7Bid%7D/updateSchema does not exist
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- June 06, 2022 21:42
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Andrew Davidson commented, May 31, 2022 17:41
to upload the workspace tsv file. You must go to the workspace data tab. Under 'other data' click on 'workspace data', the use the upload tsv. You can not upload using the plus sign next to "TABLE +"
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- Edited May 31, 2022 17:42
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Andrew Davidson commented, May 02, 2022 19:38
Hi Pamela I really appreciate your tenacity. I realize Terra is beta. There are going to be some edge cases. The directions you provided are for transferring files between a terra workspace bucket ...
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- Edited May 02, 2022 19:40
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Andrew Davidson commented, May 02, 2022 18:44
Hi Pamela My understanding is our wdl task commands run in/on a docker container. We only have access to the commands and programs installed on the container. To use gsutil it would need to be inst...
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- May 02, 2022 18:44
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Andrew Davidson commented, May 01, 2022 19:49
Hi Allie It is not clear how I would use this example? I took a look at https://github.com/gatk-workflows/gatk4-data-processing/blob/master/processing-for-variant-discovery-gatk4.wdl . It is not c...
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- Edited May 01, 2022 19:50
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Andrew Davidson commented, April 16, 2022 17:54
I created a new workspace. As a short-term workaround, My reference files are in my workspace bucket so I can use 'files' to add them to a workflow. This is not going to be easy to use in the futur...
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- April 16, 2022 17:54
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Andrew Davidson commented, April 16, 2022 17:45
I am having trouble with section 2.2 . It does not look like we have a way to upload reference tables I created from scratch? also the format seems odd and difficult to use. I want to create a ref...
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- Edited April 16, 2022 18:49
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Andrew Davidson commented, March 14, 2022 16:38
I really appreciate the release notes and updates. "To learn about what's changed, release notes are made available" I am not authorized to see the release notes at https://support.terra.bio/hc...
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- March 14, 2022 16:38
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Andrew Davidson commented, February 21, 2022 23:40
Looks like you can not edit your original post. The 'sample' data model has 39 features (i.e. columns). The column names do not seem to line up with anything in the TCGA code tables. here is an ...
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- February 21, 2022 23:40
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Andrew Davidson created a post, February 21, 2022 23:28
TCGA workspace data sample data dictionary is missing

I am working with the 33 TCGA controlled access workspaces. The 'sample' data model has 39 features (i.e. columns). I need to quantify the original RNA reads, including the unmapped reads using a n...
- Andrew Davidson
- February 21, 2022 23:28
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- 3 comments
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- Answered

TCGA workspace data sample data dictionary is missing