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Per @yhoogstrate's suggestion https://github.com/galaxyproject/galaxy/commit/c0c286a9c69dcb23a50a0b9b249cd6e5b09a3aad#commitcomment-12594774, retab .loc.samples
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@@ -8,7 +8,7 @@
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#located at /depot/data2/galaxy/anoCar1/liftOver/anoCar1ToGalGal3.over.chain,
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#then the liftOver.loc entry would look like this:
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#
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#anoCar1 galGal3 /depot/data2/galaxy/anoCar1/liftOver/anoCar1ToGalGal3.over.chain
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#anoCar1 galGal3 /depot/data2/galaxy/anoCar1/liftOver/anoCar1ToGalGal3.over.chain
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#
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#and your /depot/data2/galaxy/anoCar1/liftOver directory would
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#contain all of your "chain" files (e.g.):
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