[Bug] LipidLynx converter not working

[nmpascuali]

LipidLynx converter not working (job 6f4d841da0738c3eb354b13d589f90870e21a0f6)

I have used Lipid Lynx a few times and successfully converted my lipid lists into BioPan format.
Last week, I tried converting lipids several times and even left running over the weekend and never got a result.
These are very short lists, maybe 30 lipids long. They usually get converted in 2 mins.
Has anybody had the same issue?
I'm using the website version:
LipidLynxX version: 0.9.62
API version: 1.0

[ZhixuNi]

Hi!

Can you send your list to me so I can have a look.
Thank you!

Ni

[nmpascuali]

Hi Ni!
Sure, I would love that. Here's a combined list of all the IDs I need for BioPan.
I don't mind losing the molecular species if I can get the correct nomenclature.
Thank you so so much for your help!!

FA 16:0
FA 18:1
FA 18:0
FA 19:0
FA 20:1
FA 22:6
FA 24:4
LPE 18:0
LPC O-18:0
Cer 34:1;O2
Cer 34:1;O3
FAHFA 40:3;2O
PEtOH 16:0_16:1
SM 33:1;O2
PE O-16:1_18:2
PEtOH 16:0_18:2
PEtOH 16:0_18:1
SM 34:0;O2
SM 35:1;O2
PE 16:0_18:0
PE O-16:1_20:4
PE O-18:1_18:2
PE 36:2
PE 18:0_18:1
PG 16:0_18:2
PE O-38:5
PE O-18:0_20:4
PE 18:0_20:4
PE 18:0_20:2
PE O-40:8
PE O-40:5
PE O-18:0_22:4
PE 18:0_22:4
PG 18:1_20:4
PG 18:0_20:4
SM 41:1;O2
PI 16:0_20:4
PI 18:0_18:2
PI 18:0_18:1
PI 18:1_20:4
PI 18:0_20:4
PE 38:1
FA 15:2
CL 64:8
FA 22:5
PE 38:4
PE O-18:0_18:1
PE O-18:1_20:4
PE O-18:1_18:1
PE O-16:0_22:6
SM 39:1;2O
PC 20:4_20:4
PEtOH 38:4
PEtOH 36:4
PE 18:0_22:6
PC 38:7
PC 32:0
PC 38:4
PC 36:4
PC 36:1
PC 34:1
PC 34:3
Cholesterol

[ZhixuNi]

Hi!
I've fixed most of the list.
Just need one confirmation from you for the FAHFA 40:3;2O
Is that FAHFA has one additional O in the structure which is different from the -O- link which connects the two FA?
a possible one like this
https://lipidmaps.org/databases/lmsd/LMFA07010692

or You have the -O- on the second position of one FA chain?
However I can't find in the database... common positions are 5,7,9,...
FAHFA in LMSD: https://lipidmaps.org/quick_search?q=FAHFA

And The PEtOH will be converted into PEth according to LIPID MAPS database like this one:

https://lipidmaps.org/databases/lmsd/LMGP23010001

Is this fine for you? Please have a look from my development computer.

[nmpascuali]

Hi Ni,
Thank you so much!
The FAHFA would be the first option I think
(https://lipidmaps.org/databases/lmsd/LMFA07010692)
Yes, PEth is fine for us.

Thanks!

[ZhixuNi]

Nice!
So I think I've fixed most of the things and after other name conversion checks I will update the code.
The release on LIPID MAPS website will take some additional time.
I will let you know when the fix is online.

If you need the file early, you can send an email to me, I will send the result to you back on Friday (I'm out for a meeting and will work on my dev computer again on Friday).

[nmpascuali]

Thank you sooo much! Yes, no worries, you can send whenever you have it. Have a great meeting, Natalia From: Zhixu Ni ***@***.***> Sent: Monday, November 25, 2024 5:12 PM To: SysMedOs/LipidLynxX ***@***.***> Cc: Pascuali, Natalia Marisa ***@***.***>; Author ***@***.***> Subject: Re: [SysMedOs/LipidLynxX] [Bug] LipidLynx converter not working (Issue #31) CAUTION: External Sender Nice! So I think I've fixed most of the things and after other name conversion checks I will update the code. The release on LIPID MAPS website will take some additional time. I will let you know when the fix is online. If you need the file early, you can send an email to me, I will send the result to you back on Friday (I'm out for a meeting and will work on my dev computer again on Friday). - Reply to this email directly, view it on GitHub<#31 (comment)>, or unsubscribe<https://github.com/notifications/unsubscribe-auth/BMVICANJCLT63OCCVAHZQLT2COVD5AVCNFSM6AAAAABRFEKUB2VHI2DSMVQWIX3LMV43OSLTON2WKQ3PNVWWK3TUHMZDIOJZGIZDCNRUGA>. You are receiving this because you authored the thread.Message ID: ***@***.******@***.***>> This email originated from outside the University of Illinois System. Use caution when replying, clicking links, or opening attachments. DO NOT reply to any requests asking you to reply from a personal account or SMS.