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chrisamiller / readDepth

R package for inferring copy number from read depth
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Error in `rdo = new("rdObject")` #7

Closed sssimonyang closed 3 years ago

sssimonyang commented 4 years ago

When I prepared all data and start to run Rscript you give, run script

rdo = new("rdObject")

have error follows

Error in { : task 1 failed - "cannot open the connection"

It seems like this line of script have a connection to somewhere. I want to wonder how to fix it . Thank you

solo7773 commented 4 years ago

When I prepared all data and start to run Rscript you give, run script

rdo = new("rdObject")

have error follows

Error in { : task 1 failed - "cannot open the connection"

It seems like this line of script have a connection to somewhere. I want to wonder how to fix it . Thank you

I got the same error. Seems the names of files download from the provided website do not follow the rule of rdObject

The downloaded file could be untarred like this, tar --xform 'flags=r;s/chr//' -xf cap.tar

or rename file names after untar

rename 's/chr//' *

sssimonyang commented 3 years ago

Thank you for give me way to fix.