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[query] Provide more informative error on tabix crash #9065

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merged 1 commit into from Jul 8, 2020
Merged

[query] Provide more informative error on tabix crash #9065

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4 changes: 3 additions & 1 deletion hail/src/main/scala/is/hail/io/tabix/TabixReader.scala
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Expand Up @@ -413,7 +413,9 @@ final class TabixLineIterator(
val curOff = getVirtualOffset
if (i < 0 || curOff == 0 || !TbiOrd.less64(curOff, offsets(i)._2)) { // jump to next chunk

if (i >= 0) assert(curOff == offsets(i)._2)
if (i >= 0 && curOff != offsets(i)._2)
throw new RuntimeException(s"error reading tabix-indexed file $filePath: " +
s"i=$i, curOff=$curOff, expected=${ offsets(i)._2 }")

if (i == offsets.length - 1) {
isEof = true
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