walaj · julianhess · Dec 15, 2022 · Dec 15, 2022 · Dec 15, 2022 · Dec 15, 2022
diff --git a/.gitmodules b/.gitmodules
@@ -1,9 +1,6 @@
 [submodule "fermi-lite"]
 	path = fermi-lite
-	url = https://github.com/walaj/fermi-lite
-[submodule "htslib"]
-	path = htslib
-	url = https://github.com/samtools/htslib
+	url = [email protected]:julianhess/fermi-lite.git
 [submodule "bwa"]
 	path = bwa
-	url = https://github.com/walaj/bwa
+	url = git@github.com:lh3/bwa.git
diff --git a/bwa b/bwa
diff --git a/fermi-lite b/fermi-lite
+46 −0		.github/workflows/ci.yaml
+0 −5		.travis.yml
+674 −0		COPYING
+0 −168		LICENSE.txt
+8 −10		Makefile
+29 −1		NEWS.md
+402 −0		QSufSort.c
+45 −0		QSufSort.h
+28 −16		README.md
+13 −8		bntseq.c
+3 −3		bntseq.h
+52 −6		bwa.1
+60 −9		bwa.c
+29 −1		bwa.h
+1 −1		bwakit/bwa-postalt.js
+4 −3		bwakit/run-bwamem
+1 −1		bwakit/run-gen-ref
+48 −10		bwamem.c
+28 −0		bwamem.h
+33 −3		bwamem_extra.c
+26 −0		bwamem_pair.c
+3 −2		bwape.c
+6 −3		bwase.c
+4 −2		bwt.h
+1,629 −0		bwt_gen.c
+1 −1		bwt_lite.c
+3 −2		bwtaln.c
+1 −1		bwtgap.c
+3 −3		bwtgap.h
+53 −34		bwtindex.c
+7 −1		bwtsw2_pair.c
+30 −0		code_of_conduct.md
+46 −6		fastmap.c
+19 −0		kstring.c
+1 −20		kstring.h
+41 −5		ksw.c
+1 −0		kthread.c
+32 −3		main.c
+4 −4		malloc_wrap.c
+33 −0		neon_sse.h
+1 −1		rle.h
+119 −0		scalar_sse.h
+16 −5		utils.c
+6 −6		utils.h