FastUniq

[ae75]

I'm getting the following error with FastUniq (running for PE sequences, testing with just one pair):

Error in open left fastq file FULL TEXT OF FIRST READ IN FIRST FILE for read!

There are a few other complaints of this problem scattered on the web but none have even a suggestion for solving it. Does anyone have any ideas for how to resolve this issue? Or, alternatively, want to suggest another tool for filtering duplicates?

[sklages]

How does your input file (-i) look like? You probably just have to change input format:

Instead of

FQ_FILE1 FQ_FILE2

to

FQ_FILE1 
FQ_FILE2

At least that was my problem with input data. Probably due to wrong interpretation of the word "adjacent" used in the command overview.

tally might be of interest as well.

[bfx_inra]

Hello

I had this error when there was some space after my read1 filename in my inputlist.txt.

After the space removal, all works fine.

[baritone]

Yes!

Hello

I had this error when there was some space after my read1 filename in my inputlist.txt.

After the space removal, all works fine.

Smart guy!
This solved my problem. I think someone should modify the codes to make it tolerate the spaces