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The output files are empty ! #20

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smallhuangy opened this issue Mar 27, 2024 · 0 comments
Open

The output files are empty ! #20

smallhuangy opened this issue Mar 27, 2024 · 0 comments

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@smallhuangy
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Hello, when I used stripeDiff to analyze my Hi-C data, I found the output file is empty. I am curious whether this suggests that there are no differences in the stripes between the two samples, or if there might be an issue within the workflow.
All Hi-C data were processed and normalized by the software Juicer and analyzed with a 100-kb resolution. The input file format is verbose format produced by juicer_tools:
java -jar juicer_tools.jar dump observed NONE inter.hic 1:0:200000000 1:0:200000000 BP 100000 sample_chr1_100000.txt

And then, I used stripeDiff:
sh stripeDiff.sh -a sample1_chr1_100000.txt -b sample2_chr1_100000_mod.txt -n sample1, sample2, chr1 -o out -r 100000

There was no error of the output:

Spliting sample1_chr1_100000.txt ......
sample1_chr1_100000.txt is split successfully!
Spliting sample2_chr1_100000_mod.txt ......
sample2_chr1_100000_mod.txt is split successfully!
Extracting subchr comparisons ......
Extracting subchr comparisons is done!
Calling stripes for ./chr1_stripes/sample1_sample2.0.272 ......
Calling stripes for ./chr1_stripes/sample1_sample2.0.272 is Done!
Calling stripes for ./chr1_stripes/sample1_sample2.150.450 ......
Calling stripes for ./chr1_stripes/sample1_sample2.150.450 is Done!

However, the output files is missing data! I do hope to get your answer.

@smallhuangy smallhuangy changed the title The output file is empty ! The output files are empty ! Mar 27, 2024
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