Mercurial > repos > lsong10 > psiclass

comparison PsiCLASS-1.0.2/Makefile @ 0:903fc43d6227 draft default tip

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
Uploaded
author lsong10
date Fri, 26 Mar 2021 16:52:45 +0000
parents
children
comparison
equal deleted inserted replaced
-1:000000000000 0:903fc43d6227
1 CXX = g++
2 CXXFLAGS= -Wall -O3 #-g #-std=c++11 #-Wall #-g
3 #CXXFLAGS= -Wall -g #-std=c++11 #-Wall #-g
4 LINKPATH= -I./samtools-0.1.19 -L./samtools-0.1.19
5 LINKFLAGS = -lbam -lz -lm -lpthread
6 DEBUG=
7 OBJECTS = stats.o subexon-graph.o
8
9 all: subexon-info combine-subexons classes vote-transcripts junc grader trust-splice add-genename addXS
10
11 subexon-info: subexon-info.o $(OBJECTS)
12 if [ ! -f ./samtools-0.1.19/libbam.a ] ; \
13 then \
14 cd samtools-0.1.19 ; make ;\
15 fi ;
16 $(CXX) -o $@ $(LINKPATH) $(CXXFLAGS) $(OBJECTS) subexon-info.o $(LINKFLAGS)
17
18 combine-subexons: combine-subexons.o $(OBJECTS)
19 $(CXX) -o $@ $(LINKPATH) $(CXXFLAGS) $(OBJECTS) combine-subexons.o $(LINKFLAGS)
20
21 classes: classes.o constraints.o transcript-decider.o $(OBJECTS)
22 $(CXX) -o $@ $(LINKPATH) $(CXXFLAGS) $(OBJECTS) constraints.o transcript-decider.o classes.o $(LINKFLAGS)
23
24 trust-splice: trust-splice.o
25 $(CXX) -o $@ $(LINKPATH) $(CXXFLAGS) $(OBJECTS) trust-splice.o $(LINKFLAGS)
26
27 vote-transcripts: vote-transcripts.o
28 $(CXX) -o $@ $(LINKPATH) $(CXXFLAGS) $(OBJECTS) vote-transcripts.o $(LINKFLAGS)
29
30 junc: junc.o
31 $(CXX) -o $@ $(LINKPATH) $(CXXFLAGS) junc.o $(LINKFLAGS)
32
33 grader: grader.o
34 $(CXX) -o $@ $(LINKPATH) $(CXXFLAGS) grader.o $(LINKFLAGS)
35
36 addXS: addXS.o
37 $(CXX) -o $@ $(LINKPATH) $(CXXFLAGS) addXS.o $(LINKFLAGS)
38
39 add-genename: add-genename.o
40 $(CXX) -o $@ $(LINKPATH) $(CXXFLAGS) add-genename.o $(LINKFLAGS)
41
42 subexon-info.o: SubexonInfo.cpp alignments.hpp blocks.hpp support.hpp defs.h stats.hpp
43 $(CXX) -c -o $@ $(LINKPATH) $(CXXFLAGS) $< $(LINKFLAGS)
44 combine-subexons.o: CombineSubexons.cpp alignments.hpp blocks.hpp support.hpp defs.h stats.hpp SubexonGraph.hpp
45 $(CXX) -c -o $@ $(LINKPATH) $(CXXFLAGS) $< $(LINKFLAGS)
46 stats.o: stats.cpp stats.hpp
47 $(CXX) -c -o $@ $(LINKPATH) $(CXXFLAGS) $< $(LINKFLAGS)
48 subexon-graph.o: SubexonGraph.cpp SubexonGraph.hpp
49 $(CXX) -c -o $@ $(LINKPATH) $(CXXFLAGS) $< $(LINKFLAGS)
50 constraints.o: Constraints.cpp Constraints.hpp SubexonGraph.hpp alignments.hpp BitTable.hpp
51 $(CXX) -c -o $@ $(LINKPATH) $(CXXFLAGS) $< $(LINKFLAGS)
52 transcript-decider.o: TranscriptDecider.cpp TranscriptDecider.hpp Constraints.hpp BitTable.hpp
53 $(CXX) -c -o $@ $(LINKPATH) $(CXXFLAGS) $< $(LINKFLAGS)
54 classes.o: classes.cpp SubexonGraph.hpp SubexonCorrelation.hpp BitTable.hpp Constraints.hpp alignments.hpp TranscriptDecider.hpp
55 $(CXX) -c -o $@ $(LINKPATH) $(CXXFLAGS) $< $(LINKFLAGS)
56 trust-splice.o: GetTrustedSplice.cpp alignments.hpp
57 $(CXX) -c -o $@ $(LINKPATH) $(CXXFLAGS) $< $(LINKFLAGS)
58 vote-transcripts.o: Vote.cpp TranscriptDecider.hpp
59 $(CXX) -c -o $@ $(LINKPATH) $(CXXFLAGS) $< $(LINKFLAGS)
60 junc.o: FindJunction.cpp
61 $(CXX) -c -o $@ $(LINKPATH) $(CXXFLAGS) $< $(LINKFLAGS)
62 grader.o: grader.cpp
63 $(CXX) -c -o $@ $(LINKPATH) $(CXXFLAGS) $< $(LINKFLAGS)
64 addXS.o: AddXS.cpp
65 $(CXX) -c -o $@ $(LINKPATH) $(CXXFLAGS) $< $(LINKFLAGS)
66 add-genename.o: AddGeneName.cpp
67 $(CXX) -c -o $@ $(LINKPATH) $(CXXFLAGS) $< $(LINKFLAGS)
68
69 clean:
70 rm -f *.o *.gch subexon-info combine-subexons trust-splice vote-transcripts junc grader add-genename addXS