{is} prepare for rsem #609
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prepare-for-rsem tries to identify cases where a read has no mate by catching a look up error. However, the wrong exception type was specified. Since current template is a dictionary of defaultdicts, it shouldn't throw a key error. However the returned list will be empty, so any attempt to index into it will throw an IndexError.
…ill find secondary mates of primary reads
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Fix for #607. This was a branch that was created against 1.1.2, but never integrated into the main trunk. |
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Will there be a release soon to include this? |
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@pinin4fjords - yes! It looks like the last release (v1.1.4) is now close to a year behind the github repo. I'll sort this very soon. I've left Ian to man the ship all by himself for almost all that time so I'll need to aquaint myself with the any updates first. |
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@pinin4fjords - 1.1.5 has now been released on github. I'll check back on bioconda later when the BiocondaBot has had a chance to try and update. |
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Great- thanks @TomSmithCGAT ! |
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Merged! bioconda/bioconda-recipes#45795 (I fixed a minor linting issue) |
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Thanks @pinin4fjords. For my own education, what is the |
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See https://bioconda.github.io/contributor/linting.html#missing-run-exports Obviously feel free to tweak for future builds :-) |
Add new command that allows UMI-tools output to be used with tools that expect pairs to be adjacent to each other in the output, such as RSEM and salmon.