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The export to OpenMS with technical replicates is wrongly handled.
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Hi @shabai517:
- [ ] the project https://www.ebi.ac.uk/pride/archive/projects/PXD019394 has and SDRF and is not showing the table of the Experimental design.
- [ ] Also I found that you are qu…
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I have encountered minor issues with some files:
- [ ] PXD007555 -> comment[xxx mass tolerance] => written as 5ppm, without a space between value and unit so more complicated to parse
- [ ] PXD0…
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I tried to run a validation, but got an error on reaching an `ebi.ac.uk` server:
```bash
> parse_sdrf validate-sdrf --sdrf_file .\annotated-projects\PXD011839\sdrf.tsv
Traceback (most recent call…
enryH updated
4 years ago
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When using the conda version 0.05, then the openms folder seems to lack the _unimod.xml file_, resulting in an error when running `parse_sdrf convert-openms`
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There is a currently open PR #321, which annotates a sample spiked with a single protein (as far as I understand) analogous to already annotated [PXD001819](https://github.com/bigbio/proteomics-metada…
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Given an annotation file, would it be possible to generate a graphical overview e.g. in the form of a tree? This would help QCing the annotation and give a simple overview when browsing a data set.
!…
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I see quite a range of uses for `[phenotype]` in the annotations that do not really seem to fit the definition. The [definition](http://www.ebi.ac.uk/efo/EFO_0000651) is:
> The observable form take…
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## Bug report
### Expected behavior and actual behavior
Expected: no errors during the staging of files
Actual: in roughly 30% of the cases I get the error with the output below
### Steps t…