Extracting information from package... contains 87 tables.
Will install new genome mm9: Ensembl=> v67.0; ngs.plot=> v3.0. Continue?(y/n): y
Installing new genome...Traceback (most recent call last):
File "/home/niek/Documents/scripts/ngsplot-2.61/ngsplot/bin/setTableDefaults.py", line 36, in <module>
in_f = file(sys.argv[1])
NameError: name 'file' is not defined
Error in read.table(default.tbl, header = TRUE, sep = "\t", blank.lines.skip = TRUE, :
no lines available in input
Execution halted
Done
When I check the db list with:
$ python2 ~/Documents/scripts/ngsplot-2.61/ngsplot/bin/ngsplotdb.py list
ID Assembly Species EnsVer NPVer InstalledFeatures
hg19 GRCh37 homo_sapiens 75.0 3.0 cgi,exon,genebody,tss,tes
hg38 GRCh38 homo_sapiens 76.0 3.0 cgi,exon,genebody,tss,tes
mm9 NCBIM37 mus_musculus 67.0 3.0
There are no installed features listed with the mm9 genome. It has worked before with other genomes as you can see.
How can I fix this? Thank you.
(edit I am using ngsplot 2.61)
I wanted to add mm9 to the ngsplot db, so I downloaded the relevant file from your Google drive and ran:
But I get this error:
When I check the db list with:
There are no installed features listed with the mm9 genome. It has worked before with other genomes as you can see. How can I fix this? Thank you. (edit I am using ngsplot 2.61)