Hello,
I've been trying to merge all of the sorted alignment files in a directory. According to the documentation this is possible. Each time I try do it I get the following error: ERROR: It seems that the input file (directory) is not in the MOSAIK alignment format..
I am supply the command as follows:
./MosaikMerge -in directory -out co-assembly file
The files in the directory are all individually sorted. To test that there wasn't a problem with the files, I also tried to just merge two files in that directory as follows:
./MosaikMerge -in directory/file1 -in directory/file2 -out co-assembly file
And that worked just fine. I didn't note any timeouts or failures while running MosaikSort which could have cause something to become corrupted.
Has this ever been encountered previously? I am trying to merge 67 alignments in the directory. I am using illumina data.
Thanks
I've been trying to merge all of the sorted alignment files in a directory. According to the documentation this is possible. Each time I try do it I get the following error: ERROR: It seems that the input file (directory) is not in the MOSAIK alignment format..
I am supply the command as follows:
./MosaikMerge -in directory -out co-assembly file
The files in the directory are all individually sorted. To test that there wasn't a problem with the files, I also tried to just merge two files in that directory as follows:
./MosaikMerge -in directory/file1 -in directory/file2 -out co-assembly file
And that worked just fine. I didn't note any timeouts or failures while running MosaikSort which could have cause something to become corrupted.
Has this ever been encountered previously? I am trying to merge 67 alignments in the directory. I am using illumina data.
Thanks
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