Karel Břinda

It might be related to https://github.com/mcveanlab/mccortex/issues/89.

Other experiments revealed that adding `-m 20G` helps; I previously didn't know that this parameter should be used for the unitigs subcommand too. Maybe changing the error message `Fatal Error:...

Then I probably ran out of memory. Unfortunately, the exception (`std::out_of_range: basic_string`) is not very informative and intuitive in such a case.

I'm fine, I can use a cluster.

Deletions are currently ignored as they can't be represented by the implemented counter configurations. However, I could add additional counters for deletions in some future version of Ococo.

I have never tested Ococo in this use case. My guess is that the main issue would be indels – there are likely to be many in the input, but...

Solution: ```bash samsift -i filtered.sam -f 'locals()["is"]>50' ```

Hi Phil, I wanted to answer this question and put the answer to the FAQ section in the readme (will be created). However, I realized that I don't completely understand...

Observation: metagenomic simulation - generating *.fai files ok

You can also set automatic testing on Travis -- it is triggered by each commit.