Initial commit.

.gitignore

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+.Rhistory
+rlsim_report.tab*
+_go_.6
+rlsim
+prof.out
+TODO
+ACK

Makefile

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+
+include $(GOROOT)/src/Make.inc
+
+GC:=$(GC) -I ./src/fasta/_obj
+LD:=$(LD) -L ./src/fasta/_obj
+
+TARG=rlsim
+GOFILES=\
+	src/main.go\
+	src/args.go\
+	src/frag.go\
+	src/fragmentor.go\
+	src/nnthermo.go\
+	src/pool.go\
+	src/report.go\
+	src/sampler.go\
+	src/target.go\
+	src/transcript.go\
+	src/utils.go\
+	src/input.go\
+	src/thermocycler.go\
+	src/random.go\
+	src/logging.go\
+	src/fragstats.go\
+    src/version.go\
+
+include $(GOROOT)/src/Make.cmd 
+

README.md

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+An RNA-Seq library preparation simulator.

src/.gitignore

@@ -0,0 +1,7 @@
+.Rhistory
+rlsim_report.tab*
+_go_.6
+rlsim
+prof.out
+TODO
+ACK

src/Makefile

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+.PHONY: ct  com push fetch gt fmt
+
+ct:
+	git log --graph
+com: fmt
+	git commit -a
+push:
+	git push --all
+fetch:
+	git fetch --all
+gt:
+	gitk --all
+t: rlsim
+	./rlsim -n 2000 ../test/basic/test_transcripts.fas > /dev/null
+st: rlsim
+	./rlsim -n 200 ../test/basic/test_transcripts.fas 
+bt: rlsim
+	./rlsim -n 30000000 -t 4 -prof prof.out ../test/big_test/test_transcripts_full.fas > /dev/null
+lt:
+	./sel ../test/basic/raw_transcripts.fas
+prof:
+	gopprof ./rlsim prof.out
+
+
+include $(GOROOT)/src/Make.inc
+
+GC:=$(GC) -I ./fasta/_obj
+LD:=$(LD) -L ./fasta/_obj
+
+TARG=rlsim
+GOFILES=\
+	main.go\
+	args.go\
+	frag.go\
+	fragmentor.go\
+	nnthermo.go\
+	pool.go\
+	report.go\
+	sampler.go\
+	target.go\
+	transcript.go\
+	utils.go\
+	input.go\
+	thermocycler.go\
+	random.go\
+	logging.go\
+	fragstats.go\
+    version.go\
+
+include $(GOROOT)/src/Make.cmd 
+