Stuck on an issue?

Lightrun Answers was designed to reduce the constant googling that comes with debugging 3rd party libraries. It collects links to all the places you might be looking at while hunting down a tough bug.

And, if you’re still stuck at the end, we’re happy to hop on a call to see how we can help out.

Error with Fragpipe

See original GitHub issue

I’m trying to use this converter with Fragpipe but I get an error that doesn’t occur if I convert the RAW files to mzML with msconverter and peakpicking filter.

This is the error msg: Cannot decode packed binary. expected element type <indexedmzML> but have <mzML>

Any idea of what might cause it ?

Issue Analytics

State:
Created 3 years ago
Comments:8 (1 by maintainers)

Top GitHub Comments

2reactions

nielshulstaertcommented, Dec 17, 2020

Hi Eric, Vladimir,

Sounds good to me, I’ll add it to the next release and make it clear in the documentation.

0reactions

caeteracommented, Apr 12, 2021

Indexed mzML is the default output for version 1.3.3, thus, I think the issue can be closed. Please, reopen it, if necessary.

Top Results From Across the Web

Issues · Nesvilab/FragPipe

A cross-platform Graphical User Interface (GUI) for running MSFragger and Philosopher - powered pipeline for comprehensive analysis of shotgun proteomics ...

Using FragPipe

If you see an error saying cannot find Bruker native library, please try to install the Visual C++ redistibutable. FragPipe runs on Windows...

Error generating spectral library from FragPipe in Skyline ...

Hello,. I have not been able to generate a spectral library in Skyline from FragPipe/MSFragger output. Please find the attached error file.

Can't connect to X11 window server using ':0' error when ...

I'm attempting to build a Docker image to provision this software: https://fragpipe.nesvilab.org/docs/tutorial_setup_fragpipe.html.

Running MSFragger through Scaffold - Technical Support

error. This generic error indicates that MSFragger has crashed. Often this error indicates that MSFragger has run out of memory. Check to make ......