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This patch embeds the required configuration files into the shaded jar file for easier execution of the UI version of the tool. The command line version still supports to supply each file seperately. …
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```
unlink $HOME/R
```
https://www.liquidweb.com/kb/creating-and-removing-symbolic-links-symlinks/#:~:text=Use%20either%20the%20unlink%20or,correctly%2C%20it%20displays%20no%20output.&text=Notic…
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### Description of the bug
```
ERROR ~ Error executing process > 'NFCORE_QUANTMS:QUANTMS:LFQ:PROTEOMICSLFQ (PXD002854-serum.sdrf_openms_design)'
Caused by:
Process `NFCORE_QUANTMS:QUANTMS:LFQ:…
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Hi, in the current implementation of MzR, it only writes spectra to mzML file with `copyWriteMSData()` and `writeMSData()`. Do you know if it is possible to write chromatograms in mzML file?
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Manuel schrieb mir am 23.2.17:
> OpenMS bietet tools für LC-MS/MS daten an. Jetzt hab ich es geschafft meine GC-MS daten in mzML umzuwandeln, aber der featurefindermetabo hat probleme die zu lesen…
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Dear FlashLFQ team,
I generated a custom TSV file, according the guidelines, for FlashLFQ on mzML files, however the it keeps giving me the same error in command line and GUI:
[ErrorReport.txt](…
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Hi MSGF+ Team
Thanks for your work in MSGF+.
** I get mass spectrometry data from Bruker TimsTOF and want to do database search using MSGF+.**
**At first, I convert the *.d files into mzML. …
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I am using mzkit-20240209 version, it seems that mzML can batch import, but can not batch run peak extraction? It can only be done by right-clicking deconvolution one file at a time, but this step app…
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## Cross-device link" error when running assemble
**Describe the bug**
When running the `pcpfm` tool, an OSError with code 18 occurs, indicating a "Cross-device link" error. This error arises when…
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Polarity information is usually present in imzML files, either in the ``, e.g.
```
```
or per-spectrum, e.g.
```
```
If the polarity is p…