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xunchen85 / ERVcaller

ERVcaller is a tool designed to accurately detect and genotype non-reference unfixed endogenous retroviruses (ERVs) and other transposable elements (TEs) in the human genome using next-generation sequencing (NGS) data. We evaluated the tools using both simulated and real benchmark whole-genome sequencing (WGS) datasets. ERVcaller is capable to accurately detect various TE insertions of any lengths, particularly ERVs. It allows for the use of a TE reference library regardless of sequence complexity, such as the entire RepBase database. It is easy to install and use with command lines.

Home Page:http://www.uvm.edu/genomics/software/ERVcaller.html

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Error unexpected end of file

ceromova opened this issue · comments

commented

Hello,

I gave the program a fastq as an input but during the preocess I got this problem:

gzip: ERR2304551_picard_sorted_soft.fastq.gz: unexpected end of file

How could I fix it?

Thank you!

commented

Hi, if you already installed SEI-MEI under the scripts folder and ran ERVcaller with the test dataset. The error is more likely due to the IO issue, not the tool. You could first repeat the analysis and sometime the error would be gone.

Let me know if the error is still there. You could show me the list of generated intermediate files.

Thanks