Ondrej Klempir DNAnexus Team
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Recent activity by Ondrej Klempir
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You should be able to work with full data using JupyterLab from the very beginning with no need to use Cohort Browser. However, I would recommend to first export relevant columns and maybe apply so...
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The following worked on my side: First, go to JupyterLab Terminal and run: apt-get updateapt-get install cmake Then, in R notebook: install.packages("OlinkAnalyze")remove.packages("vctrs")install....
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I think this might be caused due to the path variable. You could try to follow this page and configure python3 as default.https://superuser.com/questions/1399544/how-to-change-default-python-execut...
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Do you remember how you installed dx-toolkit?I would be interested what happens if you try to update it via "pip3 install --upgrade dxpy"...?
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For your SAIGE question and mixed model work, actually I would like to ask how you managed to run SAIGE? I am also very interested in running SAIGE and have not yet had much success... For questio...
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Hi @Gary Burnett?, I made a testing run using a UKB cram file, facing an error: Logic error: Got an uncompressed chunk but it was null., exiting." The job log says, "input_options: --tumor-name tes...
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Hi @Burcu Çevik?, my idea would be to create a tar.gz using just the 5 files mentioned above in this thread, i.e. (.pac, .ann, .amb, .bwt and .sa.). @Gary Burnett?, please, it my thinking correct?
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Yes, I think it might work. However, I assume this (download to local and then upload to UKB RAP) would be much slower than working on RAP.
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@Anastazie Sedlakova? is on vacation right now. I think she will be able to help here once she is back. Feel free to share with us any new findings you might have in the meantime.
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Perfect! Thank you.
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