Hanbing Song

Member since January 27, 2020 20:14

Total activity 17

Last activity April 16, 2021 20:13

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Activity overview

Latest activity by Hanbing Song

Hanbing Song commented, April 16, 2021 20:13
Hi Samantha, Sorry, I have deleted the job folder a while back. But I can re-produce it on Terra and I'll reply with the submission ID when the job is done. Thanks, Hanbing
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- April 16, 2021 20:13
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Hanbing Song commented, April 16, 2021 18:51
Hi Samantha, Thanks for your reply! I found that .bed file also worked when inserted as the interval. However, I kept hitting the same error during the denoisedcount step. Strangely, when I downlo...
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- April 16, 2021 18:51
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Hanbing Song commented, April 08, 2021 18:50
Hi Samantha, Thanks for pointing it out! But I only have a .bed file for our target kit. Is there a way of converting it to the interval_list format or .bed file also works? In the meantime, in t...
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- April 08, 2021 18:50
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Hanbing Song commented, April 01, 2021 20:24
Hi Samantha, Thanks for following up on this issue and thanks for reaching out to GATKdevelopers for help! Got it, I'll change the gatk version and test it out again soon. We just figured out w...
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- April 01, 2021 20:24
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Hanbing Song commented, March 29, 2021 16:14
Hi Samantha, Thanks so much for spotting this. However, I still ran into this error in this step PlotDenoisedCopyRatiosNormal. The problem is that I have 24 samples in this batch and 11 seemed t...
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- March 29, 2021 16:14
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Hanbing Song commented, March 24, 2021 18:43
Yes, sure! Sorry bout not including that. The job ID is a2756ae7-b331-4ea3-8c0b-0843a18aea88.
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- March 24, 2021 18:43
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Hanbing Song commented, March 24, 2021 17:19
Hi Samantha, I restarted the workflow this morning and so far some of the samples failed again on the plotdenoised step and the funcotator step. I changed the funcotator datasource and didn't see ...
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- March 24, 2021 17:19
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Hanbing Song commented, March 23, 2021 21:25
Hi Samantha, Sure! I'll just reply to this thread then. Yeah, that makes a lot of sense. Thank you for the insight! I just modified the funcotator datasource to the 1.6.20190124 version and resta...
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- March 23, 2021 21:25
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Hanbing Song commented, March 23, 2021 18:32
Hi Samantha, Yes, that was the same problem because I don't know which forum would be the proper one to post this. The submission ID would be this one: 7878b8f7-2f4e-4c9e-9492-1052b0ce5c00. Th...
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- March 23, 2021 18:32
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Hanbing Song commented, March 23, 2021 15:59
Hi Samantha, Thanks for your reply and I just shared our workspace with you. The workspace name is fhuanglab/WES_pipeline. In there you might see the latest failed job running 2-CNV_Somatic_Pair...
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- March 23, 2021 15:59
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