dec161384fad86ffbb284a47f302aa06f2399ed9 galt Thu Feb 25 11:45:47 2021 -0800 Now that the limit was raised from 256 to 2048, this is not needed diff --git src/hg/liftOver/tests/makefile src/hg/liftOver/tests/makefile index 858b79f..e862075 100644 --- src/hg/liftOver/tests/makefile +++ src/hg/liftOver/tests/makefile @@ -1,21 +1,21 @@ kentSrc = ../../.. include ../../../inc/common.mk # make VERBOSE=-verbose=2 will echo out positions as they convert -test: bin bedPlus3 bedPlus3-200 bed8 bed12 simpleTest minus enm001 chuckTest chuckBigTest enr223 scaffoldEndBug +test: bin bedPlus3 bed8 bed12 simpleTest minus enm001 chuckTest chuckBigTest enr223 scaffoldEndBug # tests too slow to use in default test suite testSlow: mm3 multiple liftOver=${DESTBINDIR}/liftOver liftOverMerge=${DESTBINDIR}/liftOverMerge bed12: mkdirs ${liftOver} \ input/bed12.bed \ /cluster/data/hg38/bed/liftOver/hg38ToPanTro6.over.chain.gz \ output/bed12.good.bed output/bed12.bad.bed 2> /dev/null cat output/bed12.{good,bad}.bed | \ diff - expected/bed12.bed 1>&2 @@ -31,38 +31,30 @@ ${liftOver} -hasBin -bedPlus=6\ input/bin.bed \ /cluster/data/mm2/bed/liftOver/mm2ToMm5.over.chain.gz \ output/bin.good.bed output/bin.bad.bed 2> /dev/null cat output/bin.{good,bad}.bed | \ diff - expected/bin.bed 1>&2 bedPlus3: mkdirs ${liftOver} -bedPlus=3 \ input/bedPlus.bed \ /cluster/data/mm2/bed/liftOver/mm2ToMm5.over.chain.gz \ output/bedPlus3.good.bed output/bedPlus3.bad.bed 2> /dev/null cat output/bedPlus3.{good,bad}.bed | \ diff - expected/bedPlus3.bed 1>&2 -bedPlus3-256: mkdirs - ${liftOver} -bedPlus=3 \ - input/bedPlus-256.bed \ - /cluster/data/mm2/bed/liftOver/mm2ToMm5.over.chain.gz \ - output/bedPlus3-256.good.bed output/bedPlus3-256.bad.bed 2> /dev/null - cat output/bedPlus3-256.{good,bad}.bed | \ - diff - expected/bedPlus3-256.bed 1>&2 - simpleTest: mkdirs ${liftOver} \ input/mouseRegions.bed \ /cluster/data/hg16/bed/blastz.mm3/axtChain/subset/chr16.chain \ output/mouseRegions.good.bed \ output/mouseRegions.bad.bed 2> /dev/null cat output/mouseRegions.{good,bad}.bed | \ diff - expected/mouseRegions.bed 1>&2 minus: mkdirs ${liftOver} -minMatch=.01 minSizeT=4000 minSizeQ=20000 -multiple ${VERBOSE} \ input/enr223.S.bed \ /cluster/data/hg16/bed/blastz.mm3/axtChain/subset/chr6.chain \ output/enr223.S.good.bed \ output/enr223.S.bad.bed 2> /dev/null