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sidbdri / cookiecutter-de_analysis_skeleton

Skeleton for new differential expression analysis project.
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bic version dplyr namespace conflict #136

Closed hxin closed 3 years ago

hxin commented 4 years ago

135

133

hxin commented 4 years ago

Qn (which doesn't need any immediate response!): at some point I accidentally/deliberately updated my Bioconductor version locally, so that I have a different version than we have in Docker. This is making my life a living hell (e.g. I just found that dplyr arrange() behaviour with respect to upper and lower case has changed). At some point that is convenient for everyone, I wonder if we can consider updating both our local installations, and Docker, to the latest version of Bioconductor?

hxin commented 4 years ago

can use this for testing https://github.com/sidbdri/nrf2_astrocytes_lps_jing

lweasel commented 4 years ago

p.s. #135 is a "row names" bug, rather than a namespace clash.

There may be additional new problems in Bic 3.12 (which has only just come out), but I reckon we may as well move to the latest.

hxin commented 4 years ago

p.s. #135 is a "row names" bug, rather than a namespace clash.

There may be additional new problems in Bic 3.12 (which has only just come out), but I reckon we may as well move to the latest.

yeah agree go latest so we will be good for a while...

katieemelianova commented 3 years ago

Is this an issue to keep track of other issues? Or can it be resolved once #135 and #133 are fixed?

lweasel commented 3 years ago

I think it can be resolved.

katieemelianova commented 3 years ago

Closing this issue because the issues contained within it are waiting for merge now ✌️