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smithlabcode / methpipe

A pipeline for analyzing DNA methylation data from bisulfite sequencing.
http://smithlabresearch.org/methpipe
66 stars 27 forks source link

GCC #120

Closed hmyh1202 closed 5 years ago

hmyh1202 commented 6 years ago

can U provide a lower version of GCC requirement to install the soft? my gcc version is 4.4.7, and I can`t update it

bdecato commented 6 years ago

Hi @hmyh1202,

You have two options in this case:

  1. You can try to download a previous version of methpipe from the "releases" section on github, specifically one prior to the migration to C++11. Those will have most of the functionality of modern methpipe but should be compatible with that version of gcc.

  2. You can download the latest version of gcc (https://gcc.gnu.org/releases.html) and install it locally, and then have the makefiles in methpipe point to that version of gcc, rather than your default. This is probably the better option of the two.

I hope this helps!

Ben

andrewdavidsmith commented 6 years ago

@hmy1202 please let us know if you are able to do one of these options.

If you go for option (2), which we recommend, and encounter any difficulty, please contact us directly and we might be able to offer some help.

On Jan 15, 2018, at 6:50 PM, Benjamin Decato notifications@github.com<mailto:notifications@github.com> wrote:

Hi @hmyh1202https://urldefense.proofpoint.com/v2/url?u=https-3A__github.com_hmyh1202&d=DwMFaQ&c=clK7kQUTWtAVEOVIgvi0NU5BOUHhpN0H8p7CSfnc_gI&r=2ti3K9K1XjkPszCPHB82Aw&m=Ds4DflbkCbCit6MWurCb46PF4-EDvGCt8c3rBRWrQjI&s=Upk1f-mJt810pQPxM_qMLOiwXCUfzCwqQF02_EGeaeI&e=,

You have two options in this case:

  1. You can try to download a previous version of methpipe from the "releases" section on github, specifically one prior to the migration to C++11. Those will have most of the functionality of modern methpipe but should be compatible with that version of gcc.

  2. You can download the latest version of gcc (https://gcc.gnu.org/releases.htmlhttps://urldefense.proofpoint.com/v2/url?u=https-3A__gcc.gnu.org_releases.html&d=DwMFaQ&c=clK7kQUTWtAVEOVIgvi0NU5BOUHhpN0H8p7CSfnc_gI&r=2ti3K9K1XjkPszCPHB82Aw&m=Ds4DflbkCbCit6MWurCb46PF4-EDvGCt8c3rBRWrQjI&s=uI4zFvFgECDveBFWf6Ox6sfUdC3JDbAKlDm1JnsWrFc&e=) and install it locally, and then have the makefiles in methpipe point to that version of gcc, rather than your default. This is probably the better option of the two.

I hope this helps!

Ben

— You are receiving this because you are subscribed to this thread. Reply to this email directly, view it on GitHubhttps://urldefense.proofpoint.com/v2/url?u=https-3A__github.com_smithlabcode_methpipe_issues_120-23issuecomment-2D357839121&d=DwMFaQ&c=clK7kQUTWtAVEOVIgvi0NU5BOUHhpN0H8p7CSfnc_gI&r=2ti3K9K1XjkPszCPHB82Aw&m=Ds4DflbkCbCit6MWurCb46PF4-EDvGCt8c3rBRWrQjI&s=4PqcwECxs4BK8Gb6TtHUCfoyRtAgawPlBCmgrVDQ5QI&e=, or mute the threadhttps://urldefense.proofpoint.com/v2/url?u=https-3A__github.com_notifications_unsubscribe-2Dauth_AHBBgSuD315fCNKFTQy2Jtx0XW-2DxkN-5F6ks5tLA5-5FgaJpZM4RfKVU&d=DwMFaQ&c=clK7kQUTWtAVEOVIgvi0NU5BOUHhpN0H8p7CSfnc_gI&r=2ti3K9K1XjkPszCPHB82Aw&m=Ds4DflbkCbCit6MWurCb46PF4-EDvGCt8c3rBRWrQjI&s=Sjss6ijrD02EOfqJgcbWauUiyNkNuFvn965OX5QXE1I&e=.

bdecato commented 6 years ago

Any update on this @hmyh1202? Hope things worked out!

andrewdavidsmith commented 5 years ago

Deciding to stay with relatively recent gcc.