Segmentation fault

[ljharrison1]

Hi! I am having issues following installation of UMI_tools. I have all of the dependencies downloaded and as far as I can tell I have successfully installed UMI_tools i.e. when using pip I get back 'requirement already satisfied' and when using conda I get back 'all requested packages already installed'. However when trying to run umi_tools --help I get a segmentation fault returned. Any help would be greatly appreciated! Thanks!

[IanSudbery]

Can you let me know what operating system you are using and which approach you used to install the requirements (i.e. pip, conda, apt, brew etc).

On Wed, 15 Dec 2021 at 11:13, ljharrison1 @.***> wrote:

Hi! I am having issues following installation of UMI_tools. I have all of the dependencies downloaded and as far as I can tell I have successfully installed UMI_tools i.e. when using pip I get back 'requirement already satisfied' and when using conda I get back 'all requested packages already installed'. However when trying to run umi_tools --help I get a segmentation fault returned. Any help would be greatly appreciated! Thanks!

— You are receiving this because you are subscribed to this thread. Reply to this email directly, view it on GitHub https://github.com/CGATOxford/UMI-tools/issues/503, or unsubscribe https://github.com/notifications/unsubscribe-auth/ABJELDWKKPPIBW67J6BBNCDURBZ5VANCNFSM5KDLEOWA . 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.

-- As part of the UCU industrial action, we are only working our contracted hours. It might take me a bit longer than usual to get back to you and I may decline voluntary responsibilities or oppotunities - thank you for your patience.

--

Ian Sudbery Lecturer in Bioinformatics, Sheffield Institute for Nucleic Acids, School of Biosciences, The University of Sheffield.

web: www.sudlab.co.uk Tel: 0114 222 2738 Twitter: IanSudbery Show Calendar Availability https://calendar.google.com/calendar/u/0?cid=aS5zdWRiZXJ5QHNoZWZmaWVsZC5hYy51aw

[ljharrison1]

The operating system is Centos 7.x (binary compatible with RedHat Enterprise Linux 7.x) (I am using Bessemer at The University of Sheffield). I have tried using both pip and conda

[IanSudbery]

Are you installing into a clean environment, or one that has other things installed in it?

On Wed, 15 Dec 2021 at 11:28, ljharrison1 @.***> wrote:

The operating system is Centos 7.x (binary compatible with RedHat Enterprise Linux 7.x) (I am using Bessemer at The University of Sheffield). I have tried using both pip and conda

— You are receiving this because you commented. Reply to this email directly, view it on GitHub https://github.com/CGATOxford/UMI-tools/issues/503#issuecomment-994700385, or unsubscribe https://github.com/notifications/unsubscribe-auth/ABJELDRPTCKMTG7OZGPAGBDURB3WZANCNFSM5KDLEOWA . 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.

-- As part of the UCU industrial action, we are only working our contracted hours. It might take me a bit longer than usual to get back to you and I may decline voluntary responsibilities or oppotunities - thank you for your patience.

--

Ian Sudbery Lecturer in Bioinformatics, Sheffield Institute for Nucleic Acids, School of Biosciences, The University of Sheffield.

web: www.sudlab.co.uk Tel: 0114 222 2738 Twitter: IanSudbery Show Calendar Availability https://calendar.google.com/calendar/u/0?cid=aS5zdWRiZXJ5QHNoZWZmaWVsZC5hYy51aw

[IanSudbery]

Can you let me know the output of conda list

[ljharrison1]

I created a new environment and it's working now, thank you!