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Sample = out
Reference annotation index = mm10.exclusive.idx
Minimum number of genes required = 200
Minimum number of counts required = None
Number of threads = 1
INFO : Loading the genome annotation index... 2022-11-17 10:34:45
INFO : Loaded 'mm10.exclusive.idx' binary file with 3900779 items
['1', '10', '11', '12', '13', '14', '15', '16', '17', '18', '19', '2', '3', '4', '5', '6', '7', '8', '9', 'M', 'X', 'Y']
INFO : Finished loading the genome annotation index... 2022-11-17 10:35:33
INFO : Processing BAM/SAM files ...2022-11-17 10:35:33
INFO : Input SAM/BAM file appears to be valid
CR UR good
sh: 1: gzip: Exec format error
INFO : Done BAM/SAM files processing ...2022-11-17 10:35:39
INFO : Splitting ...2022-11-17 10:35:39
INFO : Executing single thread path
INFO : Finished processing sample files 2022-11-17 10:35:39
INFO : Fetching from the annotation index... 2022-11-17 10:35:39
sh: 1: gzip: Exec format error
/usr/bin/gunzip: 57: exec: gzip: Exec format error
INFO : Done fetching... 2022-11-17 10:35:39
INFO : Calculating expression... 2022-11-17 10:35:39
INFO : Detect 0 cells expressed at least 200 genes, results output to out.csv
INFO : Finished calculating expression 2022-11-17 10:35:39
INFO : Done with 0d 0h 0m 53s
I used test.bam to run it. But the results showed detect 0 cells expressed.
Does it mean still not working?
The text was updated successfully, but these errors were encountered:
@jphe Is this the expected result with the test bam file? I tried editing the scTE script to detect cells expressing at least 1 gene instead of 200, and kept getting the result of 0 cells.
I used test.bam to run it. But the results showed detect 0 cells expressed.
Does it mean still not working?
The text was updated successfully, but these errors were encountered: