search

Nesvilab / PD-Nodes

The implementation of MSFragger and Philosopher (PeptideProphet) as Proteome Discoverer nodes
http://www.nesvilab.org/PD-Nodes/
8 stars 1 forks source link

Unable to run MSFragger in PD2.5 #24

Closed wmnolte closed 2 years ago

wmnolte commented 3 years ago

Hello,

I installed MSFragger and PeptideProphet in PD2.5. I am able to see the nodes and initiate one of the workflow templates. However, when I try to initiate a run I get the following errors regarding the Java Virtual Machine. I'm also attaching the MagellenServer.log. Thank you for your help with this issue.

Best, Whitney Nolte

11/10 10:03 AM | (4) MSFragger | Info | MSFragger Running Time --0:0:0 11/10 10:03 AM | (4) MSFragger | Info | Invalid maximum heap size: -Xmx0G 11/10 10:03 AM | (4) MSFragger | Info | Error: A fatal exception has occurred. Program will exit. 11/10 10:03 AM | (4) MSFragger | Info | Error: Could not create the Java Virtual Machine.

MagellanServer.log

huiyinc commented 3 years ago

Hi Whitney,

The error message means that there is no Java SE Runtime Environment installed in your computer. Please follow the guideline in our github repository (link https://github.com/Nesvilab/PD-Nodes).

Best,

Huiyin

wmnolte @.***> 於 2021年11月11日 上午12:27 寫道：



Hello,

I installed MSFragger and PeptideProphet in PD2.5. I am able to see the nodes and initiate one of the workflow templates. However, when I try to initiate a run I get the following errors regarding the Java Virtual Machine. I'm also attaching the MagellenServer.log. Thank you for your help with this issue.

Best, Whitney Nolte

11/10 10:03 AM | (4) MSFragger | Info | MSFragger Running Time --0:0:0 11/10 10:03 AM | (4) MSFragger | Info | Invalid maximum heap size: -Xmx0G 11/10 10:03 AM | (4) MSFragger | Info | Error: A fatal exception has occurred. Program will exit. 11/10 10:03 AM | (4) MSFragger | Info | Error: Could not create the Java Virtual Machine.

MagellanServer.log https://github.com/Nesvilab/MSFragger/files/7514305/MagellanServer.log

— You are receiving this because you are subscribed to this thread. Reply to this email directly, view it on GitHub https://github.com/Nesvilab/PD-Nodes/issues/24, or unsubscribe https://github.com/notifications/unsubscribe-auth/ALAWWA4HT3KCXFDMJM2QCETULKMOJANCNFSM5HYKKLEQ . Triage notifications on the go with GitHub Mobile for iOS https://apps.apple.com/app/apple-store/id1477376905?ct=notification-email&mt=8&pt=524675 or Android https://play.google.com/store/apps/details?id=com.github.android&referrer=utm_campaign%3Dnotification-email%26utm_medium%3Demail%26utm_source%3Dgithub.