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Test Emerald as alternative mapper #114

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pontushojer opened this issue Oct 7, 2019 · 5 comments
Closed

Test Emerald as alternative mapper #114

pontushojer opened this issue Oct 7, 2019 · 5 comments
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@pontushojer
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Emerald github
@pontushojer pontushojer self-assigned this Oct 7, 2019
@pontushojer
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Emerald is only available through conda for linux. To use it on mac you need to use brew to install or install from source.

We could use brew as a workaround for now or update the bioconda recipe to allow for osx.

@FrickTobias
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For the time being I'd make a workaround like we had with HapCUT2.

I've briefly looked at the conda recipe, trying to compare it to the one for HapCUT2 which Marcel made but I must say I don't quite understand it as of now.

@marcelm
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marcelm commented Nov 29, 2019

i’m working on this now, see bioconda/bioconda-recipes#19002.

@marcelm
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marcelm commented Nov 30, 2019 •
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The PR has been merged. You should now be able to conda install ema even on macOS.

@pontushojer
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Sweet! I have had so much trouble getting ema to install using brew on travis, this is much more convenient :)

@pontushojer pontushojer mentioned this issue Dec 3, 2019
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@marcelm @FrickTobias @pontushojer