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cfce / chilin

ChIP-seq DC and QC Pipeline
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My ChiLin cannot find .tex files #5

Closed kumanuke closed 7 years ago

kumanuke commented 7 years ago

I have some troubles with running chilin.

When I tried demo/foxa1 using bash command, I could get the final pdf file. Next, I tried the command: chilin simple -p narrow -t foxa1_t1.fastq -c foxa1_c1.fastq -i local -o local -s hg19 --skip 10,12 --dont_remove

it says cat: /Users/macbookairf6t6/chilin/local/latex/local_fastqc.tex: No such file or directory

and the command line would stop after displaying some "LaTeX Warning".

I think there would be something wrong with my MacTex settings.. How can I solve the problem?

Thanks.

qinqian commented 7 years ago

Thanks for the feedback! Is the QC report generated? Can you paste the full log file here? I thought the issue is caused by missing fastqc result. Try to check whether the fastqc is in PATH or not.