21840941f626
Update
author | Steve Losh <steve@stevelosh.com> |
---|---|
date | Fri, 28 Feb 2020 18:18:42 -0500 |
parents | 31f98ce9303a |
children | 2ceedb8b12e9 |
branches/tags | (none) |
files | README.markdown |
Changes
--- a/README.markdown Tue Feb 25 11:26:40 2020 -0500 +++ b/README.markdown Fri Feb 28 18:18:42 2020 -0500 @@ -1032,4 +1032,20 @@ Need to align to the NCBI reference GTF instead of the other weird one. +## 2020-02-26 +Tried rebuilding the genome index with the other GTF file. Initially got: + + Feb 26 21:00:45 ..... inserting junctions into the genome indices + terminate called after throwing an instance of 'std::bad_alloc' + what(): std::bad_alloc + ./src/03-index-genome.sh: line 19: 14902 Aborted (core dumped) STAR --runThreadN $CORES --runMode genomeGenerate --genomeDir data/03-genome-index … + +That seems… bad. But perhaps this is because I didn't have enough RAM, because +I still had my Lisp process from 2 days ago open consuming ~25 GB of RAM. +I killed that so I've got about 60 GB now. Let's see if that helps. Otherwise +it sounds like I may need to look at [this](https://github.com/alexdobin/STAR/issues/103). + +Still need to find that other paper my partner found from the same people. + +Submitted weekly report.