A bug in DIA-NN 1.9.2 broke MSBooster

[benqhan]

- Upload your log file
(If a log file hasn't been generated, go to the 'Run' tab in FragPipe, click 'Export Log', zip the resulting "log_[date_time].txt" file to avoid truncation, then attach the zipped file by drag & drop here.)

- Describe the issue or question:
Hi, I'm search DIA files using FragPipe V22.0 configured with DIA-NN 1.9.2. After MAIN SEARCH DOEN, the following error appeared,

2024-10-30 13:04:12 [INFO] - [0:00] Loading spectral library E:\temp\T23090604_cell-DIA\FP22-K1S1\spectraRT.tsv
2024-10-30 13:04:12 [INFO] - [0:00] Finding proteotypic peptides (assuming that the list of UniProt ids provided for each peptide is complete)
2024-10-30 13:04:12 [INFO] - [0:00] Spectral library loaded: 0 protein isoforms, 0 protein groups and 156494 precursors in 143911 elution groups.
2024-10-30 13:04:12 [INFO] - ERROR: library contains fragments with invalid/unspecified charges
2024-10-30 13:04:13 [ERROR] - Abnormal DIANN termination: -1, please run the following command from the command line for more information
D:\software\MS\DIA-NN\1.9.2\DiaNN.exe --lib E:\temp\T23090604_cell-DIA\FP22-K1S1\spectraRT.tsv --predict --threads 2 --strip-unknown-mods --predict-n-frag 100
Process 'MSBooster' finished, exit code: -1
Process returned non-zero exit code, stopping

Cancelling 20 remaining tasks

Is FragPipe 22.0 compatible with DIA-NN 1.9.2 yet？

Best

log_2024-10-30_13-04-13.txt

[yangkl96]

Hello,

No, MSBooster is not compatible with DIA-NN as of version 1.9.2, but quant should work with the newest DIA-NN. We are working with Vadim to get a fix, but you can use a different model from Koina such as Prosit in the MSBooster interface until then.

Best,
Kevin

[benqhan]

I see. Thanks a lot.

[fcyu]

Wait for Vadim to fix the bug in DIA-NN 1.9.2: vdemichev/DiaNN#1235

Best,

Fengchao