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IGBB / quack

A FASTQ quality assessment tool
GNU General Public License v3.0
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Segmentation fault: 11 #15

Open ChrisTrivedi opened 4 years ago

ChrisTrivedi commented 4 years ago

Hi,

Really interested in trying out Quack over FastQC and Fastqp, but I'm getting an error after installation via make && make test. I seem to be able to call quack just fine, but then the only error I get is the segmentation error. I don't know anything about programming in C, and Googling such a common error hasn't really to provide me any info I might use to track down my issue.

Has anyone else had this error? Maybe I installed it wrong? I did get a slight error during the test, but I don't think this is the issue:

../quack -1 ERR1438847_1.fastq.gz -2 ERR1438847_2.fastq.gz -a ../all.fa.gz -n ERR1438847 > paired.adapter.svg convert paired.adapter.svg paired.adapter.png make[1]: convert: No such file or directory make[1]: *** [paired.adapter.png] Error 1 make: *** [images] Error 2

I'm currently trying to run this on macOS Mojave 10.14.6. I also tried by calling the MacOS binary in /bin but that didn't work for me either. Any help would be greatly appreciated. Thanks!

maa146 commented 4 years ago

You're correct about the error in make test. The ImageMagick command convert isn't installed. It's not an issue unless you want the images in something other than svg.

If memory serves, giving quack incorrect file paths -- for either of the raw data files or adapter file -- will make this happen. If the file paths are correct, can you give my the command you're trying to run?