Valentina Galata

Using the above suggestion, i.e. cloning the repository and checking out `v0.3.0`, produced in my case an error when running `make` (after `make modules`) for target `obj_linux/src/alignment/alignment_wrappers.o`. Running `make modules`...

Yes, it is related to issue [#32](https://github.com/tseemann/prokka/issues/32). Sorry for the duplicate post, somehow I did not find it then I searched for questions about the same issue. So there is...

I would also be interested in how to use additional conitgs in `metaSPAdes`, i.e. whether `--nanopore` or `--pacbio` make more sense here since the option `--trusted-contigs` is not supported.

Dear @asl, I know that the option `--trusted-contigs` can be used in general. What I meant is that it cannot be used together with `--meta`. Which is why it would...

I have the same question. I am wondering whether "All Mapped Reads" from the allele/gene mapping tables could be used to estimate the abundance if normalizing by reference length and...

I would also like to add that having support for compressed FASTQ files would be good.

Dear @lmrodriguezr, Thank you very much for looking into this! For our purpose, having the second option being implemented would be better. We use `nonpareil` in a `snakemake` workflow where...

Dear @cjfields, Could you clarify how you use the `-r` option and with which version of the tool? Also, I do not see this option listed when running `nonpareil -h`...

Dear @lmrodriguezr and @cjfields, Thank you both for looking into this!

I already mentioned it in #5476 for `1.2.3` (see [here](https://github.com/axios/axios/issues/5476#issuecomment-1396567553)) and the problem still persists in version `1.2.4`: the `headers` of the `config` in `AxiosResponse` are not optional anymore (as...