Issue 21: [pLink] the format of .mgf file is not compatible with pLink - pFind Forum

Title	[pLink] the format of .mgf file is not compatible with pLink
Priority	question	Status	finished
Superseder		Nosy List	MichaelB, ctarn
Assigned To	ctarn	Keywords

Created on 2021-05-18.09:05:34 by MichaelB, last changed by ctarn.

Files
File name	Uploaded	Type	Edit	Remove
ProblemMGFfile.mgf	MichaelB, 2021-05-18.14:31:33	application/octet-stream
pLinkProblem.png	MichaelB, 2021-05-18.09:05:34	image/png
pLinkProblem2.png	MichaelB, 2021-05-18.14:23:48	image/png

Messages
msg68 (view)	Author: ctarn	Date: 2021-05-18.14:55:00
Hi, Thanks. The format of the .mgf file is not compatible with pLink since each row of the peaks list contains three numbers instead of just two (m/z & intensity). May I ask that what's the original format of the data? I would recommend you to use the original data directly if it is acceptable by pLink; or try to convert the format using other tools.
msg67 (view)	Author: MichaelB	Date: 2021-05-18.14:30:35
Please find attached MGF file. Thank you.
msg66 (view)	Author: MichaelB	Date: 2021-05-18.14:23:48
Thank you - I have now done that - please see attached screenshot. The output says problems with the MGF file. However, the same MGF file works fine when converted to mzML with MSConvertGUI and viewed in mMass.
msg65 (view)	Author: ctarn	Date: 2021-05-18.13:34:27
Hi, issue 8 is a guide of how to run pLink in command line mode (CMD) on Windows OS. pLink for UNIX/MacOS is not released yet. Thanks you very much.
msg64 (view)	Author: MichaelB	Date: 2021-05-18.13:32:00
Hi, where can I download pLink for UNIX/MacOS so I can run it on the command line, please?
msg63 (view)	Author: ctarn	Date: 2021-05-18.12:12:14
Hi, Please try to run pLink in Command line mode and sent us the output. Please refer to issue 8.
msg62 (view)	Author: MichaelB	Date: 2021-05-18.09:05:34
Hi, I am trying to use pLink to detect SS bonds in mass spec data. After I set up the fields with a .mgf file and .fasta database and click START, pLink gives some output (see screenshot) and then crashes. Please can you assist?

History
Date	User	Action	Args
2021-05-19 10:17:24	ctarn	set	priority: urgent -> question status: chatting -> finished
2021-05-18 14:57:30	ctarn	set	title: pLink crashes on searching -> [pLink] the format of .mgf file is not compatible with pLink
2021-05-18 14:55:03	ctarn	set	messages: + msg68
2021-05-18 14:31:33	MichaelB	set	files: + ProblemMGFfile.mgf
2021-05-18 14:30:54	MichaelB	set	files: - Alan200310half.mgf
2021-05-18 14:30:45	MichaelB	set	files: + Alan200310half.mgf messages: + msg67
2021-05-18 14:23:51	MichaelB	set	files: + pLinkProblem2.png messages: + msg66
2021-05-18 13:34:30	ctarn	set	messages: + msg65
2021-05-18 13:32:03	MichaelB	set	messages: + msg64
2021-05-18 12:12:17	ctarn	set	assignedto: ctarn messages: + msg63 status: unread -> chatting nosy: + ctarn
2021-05-18 09:05:37	MichaelB	create