147740e133aa59c5aa7938ef68f1b66f3696c701
braney
  Fri Mar 13 15:29:49 2026 -0700
Revert noDots mafClick/mafFrag work from master, refs #21477

Remove the mafClickMafFrag/noDots code path from mafClick.c, hgMaf.c,
hgMaf.h, and mafFrag.c. Also remove mafFrag unit tests added as part
of this work. The code is preserved on the mafFragNoDots and
mafClickMafFrag branches.

Co-Authored-By: Claude Opus 4.6 (1M context) <noreply@anthropic.com>

diff --git src/hg/ratStuff/mafFrag/tests/makefile src/hg/ratStuff/mafFrag/tests/makefile
deleted file mode 100644
index c742601c9e1..00000000000
--- src/hg/ratStuff/mafFrag/tests/makefile
+++ /dev/null
@@ -1,51 +0,0 @@
-kentSrc = ../../../..
-include ${kentSrc}/inc/common.mk
-
-MAFFRAG = ${DESTDIR}${BINDIR}/mafFrag
-
-all::
-
-test:: basicTest revStrandTest outNameTest smallTest largerTest noDotsTest noDotsRevTest noDotsOutNameTest noDotsLargerTest
-	@echo "All mafFrag tests passed."
-
-mkdirs:
-	@${MKDIR} output
-
-basicTest: mkdirs
-	${MAFFRAG} hg38 multiz100way chr1 11000 11100 + output/$@.maf
-	diff expected/basic.maf output/$@.maf
-
-revStrandTest: mkdirs
-	${MAFFRAG} hg38 multiz100way chr1 11000 11100 - output/$@.maf
-	diff expected/revStrand.maf output/$@.maf
-
-outNameTest: mkdirs
-	${MAFFRAG} hg38 multiz100way chr1 11000 11100 + -outName=testSeq output/$@.maf
-	diff expected/outName.maf output/$@.maf
-
-smallTest: mkdirs
-	${MAFFRAG} hg38 multiz100way chr1 11000 11010 + output/$@.maf
-	diff expected/small.maf output/$@.maf
-
-largerTest: mkdirs
-	${MAFFRAG} hg38 multiz100way chr1 100000 100500 + output/$@.maf
-	diff expected/larger.maf output/$@.maf
-
-noDotsTest: mkdirs
-	${MAFFRAG} hg38 multiz100way chr1 11000 11100 + -noDots output/$@.maf
-	diff expected/noDots.maf output/$@.maf
-
-noDotsRevTest: mkdirs
-	${MAFFRAG} hg38 multiz100way chr1 11000 11100 - -noDots output/$@.maf
-	diff expected/noDotsRev.maf output/$@.maf
-
-noDotsOutNameTest: mkdirs
-	${MAFFRAG} hg38 multiz100way chr1 11000 11100 + -noDots -outName=testSeq output/$@.maf
-	diff expected/noDotsOutName.maf output/$@.maf
-
-noDotsLargerTest: mkdirs
-	${MAFFRAG} hg38 multiz100way chr1 100000 100500 + -noDots output/$@.maf
-	diff expected/noDotsLarger.maf output/$@.maf
-
-clean::
-	rm -rf output