Alexandra Lee DNAnexus Team
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Recent activity by Alexandra Lee
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I'm not able to reproduce the timeout error based on the code provided. Do you know which command call within this code block is throwing the error? Here is a previous post about troubleshooting Ha...
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I believe you can create a script to use `dx download <filename.cel>` from the terminal. Or alternatively, when you are logged into the UKB RAP, if you navigate to the `Bulk/Genotype Results/CEL fi...
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Just to add to Rachael's already very helpful comments. You can probably follow the steps for extracting proteomics data seen here: https://github.com/dnanexus/UKB_RAP/blob/main/proteomics/0_extrac...
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Doing some more digging, it looks like due to how the ports are setup on RAP that you currently cannot run Tensorboard inside the jupyter notebook notebook. However, internally we're looking into p...
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Hi Richa, What error are you running into? Is this an error getting the tensorflow app installed (following the instructions in github here: https://github.com/dnanexus/dnanexus-example-applets/tre...
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Thanks so much Ondrej, One of the things I'm interested in doing is being able to re-run an analysis after adjusting the input and this is a great trick that I can use for updating the json and re-...
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See https://community.dnanexus.com/s/question/0D5t000004RYPRNCA5/dna-nexus-and-nextflow
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Here is what I did that worked: run_merge=?cp /mnt/project/Bulk/Genotype\ Results/Genotype\ calls/ukb22418_c[1-9]* . ; ls *.bed | sed -e 's/.bed//g'> files_to_merge.txt; plink --merge-list files_to...
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Hi Ilaria, I don?t think you need to use the mounted files (i.e. `/mnt/project/`) with the -icmd params for your command. So you can use `ad_risk_by_proxy_wes.phe` instead of `/mnt/project/ad_risk_...
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It looks like you're using `/mnt/project/ in your `-iin` params. Maybe try removing the mounted file path
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