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Commit 8ffb570

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Update dependencies
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jbrowse/package-lock.json

Lines changed: 12 additions & 14 deletions
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singlecell/src/org/labkey/singlecell/run/CellRangerGexCountStep.java

Lines changed: 1 addition & 6 deletions
Original file line numberDiff line numberDiff line change
@@ -649,11 +649,6 @@ public File getInclusionListFile(Logger logger) throws PipelineJobException
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if (!exePath.isAbsolute())
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{
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File parent = exe.getParentFile();
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if (parent.getPath().endsWith("bin"))
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{
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parent = parent.getParentFile();
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}
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exePath = parent.toPath().resolve(exePath);
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logger.debug("resolved symlink target: " + exePath);
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}
@@ -667,7 +662,7 @@ public File getInclusionListFile(Logger logger) throws PipelineJobException
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}
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}
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File il = new File(exe.getParentFile(), "lib/python/cellranger/barcodes/" + _inclusionListFile);
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File il = new File(exe.getParentFile(), "../lib/python/cellranger/barcodes/" + _inclusionListFile);
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if (!il.exists())
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{
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throw new PipelineJobException("Unable to find file: " + il.getPath());

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