Danielle Callan

wondering if there is a known work-around in the mean time? or an update on this? @florian-guily ?

another ex if it helps: ``` k__Bacteria|p__Firmicutes|c__Clostridia|o__Eubacteriales|f__Eubacteriales_unclassified|g__Eubacteriales_unclassified|s__Clostridiales_bacterium|t__SGB15143 2|1239|186801|186802|||1898207| 0.02366 k__Bacteria|p__Firmicutes|c__Clostridia|o__Eubacteriales|f__Eubacteriales_unclassified|g__Eubacteriales_unclassified|s__Clostridiales_bacterium|t__SGB15159 2|1239|186801|186802|||1898207| 0.02308 ```

@Midnighter I think that's as reasonable as anything.. if I want strains from biobakery tools I'd look to strainphlan rather than metaphlan. It's possible a warning would be good, or...

@Midnighter im also wondering if you have a sense for what this would take in terms of effort? i am very interested in getting this working, and would be willing...

this one i think is fun ``` k__Bacteria|p__Firmicutes|c__Negativicutes 2|1239|909932 5.20485 k__Bacteria|p__Actinobacteria|c__Actinomycetia 2|201174|1760 2.05981 k__Bacteria|p__Firmicutes|c__CFGB2834 2|1239| 0.94398 k__Bacteria|p__Proteobacteria|c__Betaproteobacteria 2|1224|28216 0.81827 k__Bacteria|p__Actinobacteria|c__Coriobacteriia 2|201174|84998 0.46979 k__Bacteria|p__Firmicutes|c__CFGB1227 2|1239| 0.404 k__Bacteria|p__Firmicutes|c__CFGB3038 2|1239| 0.18149 k__Bacteria|p__Firmicutes|c__CFGB3054 2|1239|...

I'll put this here in case it proves a helpful reference http://segatalab.cibio.unitn.it/data/Pasolli_et_al.html Also, I'll comment that mapping metaphlan outputs to ncbi taxonomy seems a reasonable use case nonetheless and makes...

having thought about it a bit since yesterday, maybe we need this to actually be two issues? one for supporting metaphlan on the ncbi taxonomy using the solution previously suggested...

ok so on the one hand this is pretty cool.. but also, some practical questions, if i may: 1. are notebooks allowed to live anywhere? or is there a galaxyproject...

thanks for your effort on this :) it seems to not err any longer, which is a great improvement! i tried w a pretty small/ and mostly manufactured test case...

I see what you mean... And I suppose the two entities in the example are already counted towards 1239 now I think about it. Though removing entries means a rank...