Originally posted by Kuckunniwi
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Files can be truncated if the file was copied and the transfer corrupted the files, or potentially if the alignment process was terminated abruptly. This may happen either by pressing ctrl + C or something similar, or if the Bismark align process runs out of memory or gets killed by your OS.
Normally it is sufficient to run the alignments again (making sure that you have enough system resources available). If you can see the final Bismark alignment report the file should be ready for the methylation extraction. Best, Felix
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