[gentoo-commits] repo/gentoo:master commit in: sci-biology/STAR/files/, sci-biology/STAR/ - gentoo-commits

From:	David Seifert <soap@g.o>
To:	gentoo-commits@l.g.o
Subject:	[gentoo-commits] repo/gentoo:master commit in: sci-biology/STAR/files/, sci-biology/STAR/
Date:	Sat, 07 May 2022 11:01:17
Message-Id:	`1651921261.bcd5ba73fe296ee35a11a3ee96a62a35afa4ac0a.soap@gentoo`

1

commit:     bcd5ba73fe296ee35a11a3ee96a62a35afa4ac0a

2

Author:     David Seifert <soap <AT> gentoo <DOT> org>

3

AuthorDate: Sat May  7 11:01:01 2022 +0000

4

Commit:     David Seifert <soap <AT> gentoo <DOT> org>

5

CommitDate: Sat May  7 11:01:01 2022 +0000

6

URL:        https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=bcd5ba73

7

8

sci-biology/STAR: drop 2.5.3a

9

10

Closes: https://bugs.gentoo.org/716300

11

Closes: https://bugs.gentoo.org/736056

12

Closes: https://bugs.gentoo.org/741152

13

Signed-off-by: David Seifert <soap <AT> gentoo.org>

14

15

 sci-biology/STAR/Manifest                          |   1 -

16

 sci-biology/STAR/STAR-2.5.3a.ebuild                |  42 -------

17

 .../STAR/files/STAR-2.5.3a-fix-build-system.patch  | 123 ---------------------

18

 3 files changed, 166 deletions(-)

19

20

diff --git a/sci-biology/STAR/Manifest b/sci-biology/STAR/Manifest

21

index d8457898903d..d97c61cb21c0 100644

22

--- a/sci-biology/STAR/Manifest

23

+++ b/sci-biology/STAR/Manifest

24

@@ -1,2 +1 @@

25

-DIST STAR-2.5.3a.tar.gz 9857460 BLAKE2B 32cc633862e6e81f5a5bdfc59986dca74e8adc4970a11a06c501065c5ad9cb37fc788f8e67ab2353292e683c8c385778cd0ffee69c0b15803796dbc445013a43 SHA512 8bd86ad384f2c0331fd701873b02641301f4205a5ff0fceeb800d425da42c53b6c61a74500d37fee7fc13a5bff10e1fb44b9142811883b8f5cd012f51f1f9fdf

26

 DIST STAR-2.7.10a.tar.gz 12270915 BLAKE2B 51a9cf2c838cfeb313df9e5024b53cd5a89088f08ac88c8dc57a9e08cd3ba394e46ffe86a8ff3b9484b25b681ecd960098c06d879e772d21afe8cc2d0d35175d SHA512 19a5f3c25d147bcd96cf68249d275dad7fd11425031a40c97c7ae15846f55839ced897d541ed60b426a6bf089d968ac86625af774db3950dc459035ac2b659c9

27

28

diff --git a/sci-biology/STAR/STAR-2.5.3a.ebuild b/sci-biology/STAR/STAR-2.5.3a.ebuild

29

deleted file mode 100644

30

index 73743cbb4e59..000000000000

31

--- a/sci-biology/STAR/STAR-2.5.3a.ebuild

32

+++ /dev/null

33

@@ -1,42 +0,0 @@

34

-# Copyright 1999-2017 Gentoo Foundation

35

-# Distributed under the terms of the GNU General Public License v2

36

-

37

-EAPI=6

38

-

39

-inherit toolchain-funcs

40

-

41

-DESCRIPTION="STAR aligner: align RNA-seq reads to reference genome uncompressed suffix arrays"

42

-HOMEPAGE="https://github.com/alexdobin/STAR"

43

-SRC_URI="https://github.com/alexdobin/${PN}/archive/${PV}.tar.gz -> ${P}.tar.gz"

44

-

45

-LICENSE="GPL-3"

46

-SLOT="0"

47

-KEYWORDS="~amd64"

48

-

49

-RDEPEND="sci-libs/htslib:="

50

-DEPEND="${RDEPEND}

51

-	virtual/pkgconfig"

52

-

53

-PATCHES=( "${FILESDIR}"/${PN}-2.5.3a-fix-build-system.patch )

54

-DOCS=( README.md CHANGES.md RELEASEnotes.md doc/STARmanual.pdf )

55

-

56

-pkg_pretend() {

57

-	[[ ${MERGE_TYPE} != binary ]] && tc-check-openmp

58

-}

59

-

60

-pkg_setup() {

61

-	[[ ${MERGE_TYPE} != binary ]] && tc-check-openmp

62

-}

63

-

64

-src_configure() {

65

-	tc-export CC CXX PKG_CONFIG

66

-}

67

-

68

-src_compile() {

69

-	emake -C source STAR

70

-}

71

-

72

-src_install() {

73

-	dobin source/STAR

74

-	einstalldocs

75

-}

76

77

diff --git a/sci-biology/STAR/files/STAR-2.5.3a-fix-build-system.patch b/sci-biology/STAR/files/STAR-2.5.3a-fix-build-system.patch

78

deleted file mode 100644

79

index 8e504fa429e0..000000000000

80

--- a/sci-biology/STAR/files/STAR-2.5.3a-fix-build-system.patch

81

+++ /dev/null

82

@@ -1,123 +0,0 @@

83

-* unbundle htslib

84

-* honour all user flags

85

-* use pkg-config for linking

86

-

87

---- a/source/Makefile

88

-+++ b/source/Makefile

89

-@@ -8,24 +8,12 @@

90

- LDFLAGSextra ?=

91

- CXXFLAGSextra ?=

92

-

93

--# user may define the compiler

94

--CXX ?= g++

95

--

96

- # pre-defined flags

97

--LDFLAGS_shared := -pthread -Lhtslib -Bstatic -lhts -Bdynamic -lz -lrt

98

--LDFLAGS_static := -static -static-libgcc -pthread -Lhtslib -lhts -lz

99

--LDFLAGS_Mac :=-pthread -lz htslib/libhts.a

100

--LDFLAGS_Mac_static :=-pthread -lz -static-libgcc htslib/libhts.a

101

--LDFLAGS_gdb := $(LDFLAGS_shared)

102

--

103

- COMPTIMEPLACE := -D'COMPILATION_TIME_PLACE="$(shell echo `date` $(HOSTNAME):`pwd`)"'

104

-

105

--CXXFLAGS_common := -pipe -std=c++11 -Wall -Wextra -fopenmp $(COMPTIMEPLACE)

106

--CXXFLAGS_main := -O3 $(CXXFLAGS_common)

107

--CXXFLAGS_gdb :=  -O0 -g $(CXXFLAGS_common)

108

--

109

--CFLAGS := -O3 -pipe -Wall -Wextra $(CFLAGS)

110

--

111

-+CFLAGS_common = -Wall -Wextra -pthread `$(PKG_CONFIG) --cflags htslib` `$(PKG_CONFIG) --cflags zlib`

112

-+CXXFLAGS_common = $(CFLAGS_common) -std=c++11 -fopenmp $(COMPTIMEPLACE)

113

-+LIBS_common = -pthread `$(PKG_CONFIG) --libs htslib` `$(PKG_CONFIG) --libs zlib` -lrt

114

-

115

- ##########################################################################################################

116

-

117

-@@ -54,10 +42,10 @@

118

-

119

-

120

- %.o : %.cpp

121

--	$(CXX) -c $(CPPFLAGS) $(CXXFLAGS) $<

122

-+	$(CXX) -c $(CPPFLAGS) $(CXXFLAGS) $(CXXFLAGS_common) $<

123

-

124

- %.o : %.c

125

--	$(CXX) -c $(CPPFLAGS) $(CFLAGS) $<

126

-+	$(CXX) -c $(CPPFLAGS) $(CFLAGS) $(CFLAGS_common) $<

127

-

128

- all: STAR

129

-

130

-@@ -84,7 +72,7 @@

131

- ifneq ($(MAKECMDGOALS),CLEAN)

132

- ifneq ($(MAKECMDGOALS),STARforMac)

133

- ifneq ($(MAKECMDGOALS),STARforMacGDB)

134

--Depend.list: $(SOURCES) parametersDefault.xxd htslib

135

-+Depend.list: $(SOURCES) parametersDefault.xxd

136

- 	echo $(SOURCES)

137

- 	/bin/rm -f ./Depend.list

138

- 	$(CXX) $(CXXFLAGS_common) -MM $^ >> Depend.list

139

-@@ -95,57 +83,34 @@

140

- endif

141

- endif

142

-

143

--htslib : htslib/libhts.a

144

--

145

--htslib/libhts.a :

146

--	$(MAKE) -C htslib lib-static

147

--

148

- parametersDefault.xxd: parametersDefault

149

- 	xxd -i parametersDefault > parametersDefault.xxd

150

-

151

--STAR : CXXFLAGS := $(CXXFLAGSextra) $(CXXFLAGS_main) $(CXXFLAGS)

152

--STAR : LDFLAGS := $(LDFLAGSextra) $(LDFLAGS_shared) $(LDFLAGS)

153

- STAR : Depend.list parametersDefault.xxd $(OBJECTS)

154

--	$(CXX) -o STAR $(CXXFLAGS) $(OBJECTS) $(LDFLAGS)

155

-+	$(CXX) $(CXXFLAGS) $(CXXFLAGS_common) $(LDFLAGS) -o STAR $(OBJECTS) $(LIBS) $(LIBS_common)

156

-

157

--POSIXSHARED : CXXFLAGS := $(CXXFLAGSextra) $(CXXFLAGS_main) -DPOSIX_SHARED_MEM $(CXXFLAGS)

158

--POSIXSHARED : LDFLAGS := $(LDFLAGSextra) $(LDFLAGS_shared) $(LDFLAGS)

159

- POSIXSHARED : Depend.list parametersDefault.xxd $(OBJECTS)

160

--	$(CXX) -o STAR $(CXXFLAGS) $(OBJECTS) $(LDFLAGS)

161

-+	$(CXX) $(CXXFLAGS) $(CXXFLAGS_common) $(LDFLAGS) -o STAR $(OBJECTS) $(LIBS) $(LIBS_common)

162

-

163

--STARstatic : CXXFLAGS := $(CXXFLAGSextra) $(CXXFLAGS_main) $(CXXFLAGS)

164

--STARstatic : LDFLAGS := $(LDFLAGSextra) $(LDFLAGS_static) $(LDFLAGS)

165

- STARstatic : Depend.list parametersDefault.xxd $(OBJECTS)

166

--	$(CXX) -o STAR $(CXXFLAGS) $(OBJECTS) $(LDFLAGS)

167

-+	$(CXX) $(CXXFLAGS) $(CXXFLAGS_common) $(LDFLAGS) -o STAR $(OBJECTS) $(LIBS) $(LIBS_common)

168

-

169

--STARlong : CXXFLAGS := $(CXXFLAGSextra) $(CXXFLAGS_main) -D'COMPILE_FOR_LONG_READS' $(CXXFLAGS)

170

--STARlong : LDFLAGS := $(LDFLAGSextra) $(LDFLAGS_shared) $(LDFLAGS)

171

- STARlong : Depend.list parametersDefault.xxd $(OBJECTS)

172

--	$(CXX) -o STARlong $(CXXFLAGS) $(OBJECTS) $(LDFLAGS)

173

-+	$(CXX) $(CXXFLAGS) $(CXXFLAGS_common) $(LDFLAGS) -o STARlong $(OBJECTS) $(LIBS) $(LIBS_common)

174

-

175

--STARlongStatic : CXXFLAGS := $(CXXFLAGSextra) $(CXXFLAGS_main) -D'COMPILE_FOR_LONG_READS' $(CXXFLAGS)

176

--STARlongStatic : LDFLAGS := $(LDFLAGSextra) $(LDFLAGS_static) $(LDFLAGS)

177

- STARlongStatic : Depend.list parametersDefault.xxd $(OBJECTS)

178

--	$(CXX) -o STARlong $(CXXFLAGS) $(OBJECTS) $(LDFLAGS)

179

-+	$(CXX) $(CXXFLAGS) $(CXXFLAGS_common) $(LDFLAGS) -o STARlong $(OBJECTS) $(LIBS) $(LIBS_common)

180

-

181

--gdb : CXXFLAGS := $(CXXFLAGSextra) $(CXXFLAGS_gdb) $(CXXFLAGS)

182

--gdb : LDFLAGS := $(LDFLAGSextra) $(LDFLAGS_gdb) $(LDFLAGS)

183

- gdb : Depend.list parametersDefault.xxd $(OBJECTS)

184

--	$(CXX) -o STAR $(CXXFLAGS) $(OBJECTS) $(LDFLAGS)

185

-+	$(CXX) $(CXXFLAGS) $(CXXFLAGS_common) $(LDFLAGS) -o STAR $(OBJECTS) $(LIBS) $(LIBS_common)

186

-

187

--gdb-long : CXXFLAGS := $(CXXFLAGSextra) $(CXXFLAGS_gdb) -D'COMPILE_FOR_LONG_READS' $(CXXFLAGS)

188

--gdb-long : LDFLAGS := $(LDFLAGSextra) $(LDFLAGS_gdb) $(LDFLAGS)

189

- gdb-long : Depend.list parametersDefault.xxd $(OBJECTS)

190

--	$(CXX) -o STARlong $(CXXFLAGS) $(OBJECTS) $(LDFLAGS)

191

-+	$(CXX) $(CXXFLAGS) $(CXXFLAGS_common) $(LDFLAGS) -o STARlong $(OBJECTS) $(LIBS) $(LIBS_common)

192

-

193

--STARforMacStatic : CXXFLAGS := $(CXXFLAGSextra) $(CXXFLAGS_main) -D'COMPILE_FOR_MAC' $(CXXFLAGS)

194

--STARforMacStatic : LDFLAGS := $(LDFLAGSextra) $(LDFLAGS_Mac_static) $(LDFLAGS)

195

- STARforMacStatic : Depend.list parametersDefault.xxd $(OBJECTS)

196

--	$(CXX) -o STAR $(CXXFLAGS) $(OBJECTS) $(LDFLAGS)

197

-+	$(CXX) $(CXXFLAGS) $(CXXFLAGS_common) $(LDFLAGS) -o STAR $(OBJECTS) $(LIBS) $(LIBS_common)

198

-

199

--STARlongForMacStatic : CXXFLAGS := -D'COMPILE_FOR_LONG_READS' $(CXXFLAGSextra) $(CXXFLAGS_main) -D'COMPILE_FOR_MAC' $(CXXFLAGS)

200

--STARlongForMacStatic : LDFLAGS := $(LDFLAGSextra) $(LDFLAGS_Mac_static) $(LDFLAGS)

201

- STARlongForMacStatic : Depend.list parametersDefault.xxd $(OBJECTS)

202

--	$(CXX) -o STARlong $(CXXFLAGS) $(OBJECTS) $(LDFLAGS)

203

-+	$(CXX) $(CXXFLAGS) $(CXXFLAGS_common) $(LDFLAGS) -o STARlong $(OBJECTS) $(LIBS) $(LIBS_common)

204

-

205

-

1	commit: bcd5ba73fe296ee35a11a3ee96a62a35afa4ac0a
2	Author: David Seifert <soap <AT> gentoo <DOT> org>
3	AuthorDate: Sat May 7 11:01:01 2022 +0000
4	Commit: David Seifert <soap <AT> gentoo <DOT> org>
5	CommitDate: Sat May 7 11:01:01 2022 +0000
6	URL: https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=bcd5ba73
7
8	sci-biology/STAR: drop 2.5.3a
9
10	Closes: https://bugs.gentoo.org/716300
11	Closes: https://bugs.gentoo.org/736056
12	Closes: https://bugs.gentoo.org/741152
13	Signed-off-by: David Seifert <soap <AT> gentoo.org>
14
15	sci-biology/STAR/Manifest \| 1 -
16	sci-biology/STAR/STAR-2.5.3a.ebuild \| 42 -------
17	.../STAR/files/STAR-2.5.3a-fix-build-system.patch \| 123 ---------------------
18	3 files changed, 166 deletions(-)
19
20	diff --git a/sci-biology/STAR/Manifest b/sci-biology/STAR/Manifest
21	index d8457898903d..d97c61cb21c0 100644
22	--- a/sci-biology/STAR/Manifest
23	+++ b/sci-biology/STAR/Manifest
24	@@ -1,2 +1 @@
25	-DIST STAR-2.5.3a.tar.gz 9857460 BLAKE2B 32cc633862e6e81f5a5bdfc59986dca74e8adc4970a11a06c501065c5ad9cb37fc788f8e67ab2353292e683c8c385778cd0ffee69c0b15803796dbc445013a43 SHA512 8bd86ad384f2c0331fd701873b02641301f4205a5ff0fceeb800d425da42c53b6c61a74500d37fee7fc13a5bff10e1fb44b9142811883b8f5cd012f51f1f9fdf
26	DIST STAR-2.7.10a.tar.gz 12270915 BLAKE2B 51a9cf2c838cfeb313df9e5024b53cd5a89088f08ac88c8dc57a9e08cd3ba394e46ffe86a8ff3b9484b25b681ecd960098c06d879e772d21afe8cc2d0d35175d SHA512 19a5f3c25d147bcd96cf68249d275dad7fd11425031a40c97c7ae15846f55839ced897d541ed60b426a6bf089d968ac86625af774db3950dc459035ac2b659c9
27
28	diff --git a/sci-biology/STAR/STAR-2.5.3a.ebuild b/sci-biology/STAR/STAR-2.5.3a.ebuild
29	deleted file mode 100644
30	index 73743cbb4e59..000000000000
31	--- a/sci-biology/STAR/STAR-2.5.3a.ebuild
32	+++ /dev/null
33	@@ -1,42 +0,0 @@
34	-# Copyright 1999-2017 Gentoo Foundation
35	-# Distributed under the terms of the GNU General Public License v2
36	-
37	-EAPI=6
38	-
39	-inherit toolchain-funcs
40	-
41	-DESCRIPTION="STAR aligner: align RNA-seq reads to reference genome uncompressed suffix arrays"
42	-HOMEPAGE="https://github.com/alexdobin/STAR"
43	-SRC_URI="https://github.com/alexdobin/${PN}/archive/${PV}.tar.gz -> ${P}.tar.gz"
44	-
45	-LICENSE="GPL-3"
46	-SLOT="0"
47	-KEYWORDS="~amd64"
48	-
49	-RDEPEND="sci-libs/htslib:="
50	-DEPEND="${RDEPEND}
51	- virtual/pkgconfig"
52	-
53	-PATCHES=( "${FILESDIR}"/${PN}-2.5.3a-fix-build-system.patch )
54	-DOCS=( README.md CHANGES.md RELEASEnotes.md doc/STARmanual.pdf )
55	-
56	-pkg_pretend() {
57	- [[ ${MERGE_TYPE} != binary ]] && tc-check-openmp
58	-}
59	-
60	-pkg_setup() {
61	- [[ ${MERGE_TYPE} != binary ]] && tc-check-openmp
62	-}
63	-
64	-src_configure() {
65	- tc-export CC CXX PKG_CONFIG
66	-}
67	-
68	-src_compile() {
69	- emake -C source STAR
70	-}
71	-
72	-src_install() {
73	- dobin source/STAR
74	- einstalldocs
75	-}
76
77	diff --git a/sci-biology/STAR/files/STAR-2.5.3a-fix-build-system.patch b/sci-biology/STAR/files/STAR-2.5.3a-fix-build-system.patch
78	deleted file mode 100644
79	index 8e504fa429e0..000000000000
80	--- a/sci-biology/STAR/files/STAR-2.5.3a-fix-build-system.patch
81	+++ /dev/null
82	@@ -1,123 +0,0 @@
83	-* unbundle htslib
84	-* honour all user flags
85	-* use pkg-config for linking
86	-
87	---- a/source/Makefile
88	-+++ b/source/Makefile
89	-@@ -8,24 +8,12 @@
90	- LDFLAGSextra ?=
91	- CXXFLAGSextra ?=
92	-
93	--# user may define the compiler
94	--CXX ?= g++
95	--
96	- # pre-defined flags
97	--LDFLAGS_shared := -pthread -Lhtslib -Bstatic -lhts -Bdynamic -lz -lrt
98	--LDFLAGS_static := -static -static-libgcc -pthread -Lhtslib -lhts -lz
99	--LDFLAGS_Mac :=-pthread -lz htslib/libhts.a
100	--LDFLAGS_Mac_static :=-pthread -lz -static-libgcc htslib/libhts.a
101	--LDFLAGS_gdb := $(LDFLAGS_shared)
102	--
103	- COMPTIMEPLACE := -D'COMPILATION_TIME_PLACE="$(shell echo `date` $(HOSTNAME):`pwd`)"'
104	-
105	--CXXFLAGS_common := -pipe -std=c++11 -Wall -Wextra -fopenmp $(COMPTIMEPLACE)
106	--CXXFLAGS_main := -O3 $(CXXFLAGS_common)
107	--CXXFLAGS_gdb := -O0 -g $(CXXFLAGS_common)
108	--
109	--CFLAGS := -O3 -pipe -Wall -Wextra $(CFLAGS)
110	--
111	-+CFLAGS_common = -Wall -Wextra -pthread `$(PKG_CONFIG) --cflags htslib` `$(PKG_CONFIG) --cflags zlib`
112	-+CXXFLAGS_common = $(CFLAGS_common) -std=c++11 -fopenmp $(COMPTIMEPLACE)
113	-+LIBS_common = -pthread `$(PKG_CONFIG) --libs htslib` `$(PKG_CONFIG) --libs zlib` -lrt
114	-
115	- ##########################################################################################################
116	-
117	-@@ -54,10 +42,10 @@
118	-
119	-
120	- %.o : %.cpp
121	-- $(CXX) -c $(CPPFLAGS) $(CXXFLAGS) $<
122	-+ $(CXX) -c $(CPPFLAGS) $(CXXFLAGS) $(CXXFLAGS_common) $<
123	-
124	- %.o : %.c
125	-- $(CXX) -c $(CPPFLAGS) $(CFLAGS) $<
126	-+ $(CXX) -c $(CPPFLAGS) $(CFLAGS) $(CFLAGS_common) $<
127	-
128	- all: STAR
129	-
130	-@@ -84,7 +72,7 @@
131	- ifneq ($(MAKECMDGOALS),CLEAN)
132	- ifneq ($(MAKECMDGOALS),STARforMac)
133	- ifneq ($(MAKECMDGOALS),STARforMacGDB)
134	--Depend.list: $(SOURCES) parametersDefault.xxd htslib
135	-+Depend.list: $(SOURCES) parametersDefault.xxd
136	- echo $(SOURCES)
137	- /bin/rm -f ./Depend.list
138	- $(CXX) $(CXXFLAGS_common) -MM $^ >> Depend.list
139	-@@ -95,57 +83,34 @@
140	- endif
141	- endif
142	-
143	--htslib : htslib/libhts.a
144	--
145	--htslib/libhts.a :
146	-- $(MAKE) -C htslib lib-static
147	--
148	- parametersDefault.xxd: parametersDefault
149	- xxd -i parametersDefault > parametersDefault.xxd
150	-
151	--STAR : CXXFLAGS := $(CXXFLAGSextra) $(CXXFLAGS_main) $(CXXFLAGS)
152	--STAR : LDFLAGS := $(LDFLAGSextra) $(LDFLAGS_shared) $(LDFLAGS)
153	- STAR : Depend.list parametersDefault.xxd $(OBJECTS)
154	-- $(CXX) -o STAR $(CXXFLAGS) $(OBJECTS) $(LDFLAGS)
155	-+ $(CXX) $(CXXFLAGS) $(CXXFLAGS_common) $(LDFLAGS) -o STAR $(OBJECTS) $(LIBS) $(LIBS_common)
156	-
157	--POSIXSHARED : CXXFLAGS := $(CXXFLAGSextra) $(CXXFLAGS_main) -DPOSIX_SHARED_MEM $(CXXFLAGS)
158	--POSIXSHARED : LDFLAGS := $(LDFLAGSextra) $(LDFLAGS_shared) $(LDFLAGS)
159	- POSIXSHARED : Depend.list parametersDefault.xxd $(OBJECTS)
160	-- $(CXX) -o STAR $(CXXFLAGS) $(OBJECTS) $(LDFLAGS)
161	-+ $(CXX) $(CXXFLAGS) $(CXXFLAGS_common) $(LDFLAGS) -o STAR $(OBJECTS) $(LIBS) $(LIBS_common)
162	-
163	--STARstatic : CXXFLAGS := $(CXXFLAGSextra) $(CXXFLAGS_main) $(CXXFLAGS)
164	--STARstatic : LDFLAGS := $(LDFLAGSextra) $(LDFLAGS_static) $(LDFLAGS)
165	- STARstatic : Depend.list parametersDefault.xxd $(OBJECTS)
166	-- $(CXX) -o STAR $(CXXFLAGS) $(OBJECTS) $(LDFLAGS)
167	-+ $(CXX) $(CXXFLAGS) $(CXXFLAGS_common) $(LDFLAGS) -o STAR $(OBJECTS) $(LIBS) $(LIBS_common)
168	-
169	--STARlong : CXXFLAGS := $(CXXFLAGSextra) $(CXXFLAGS_main) -D'COMPILE_FOR_LONG_READS' $(CXXFLAGS)
170	--STARlong : LDFLAGS := $(LDFLAGSextra) $(LDFLAGS_shared) $(LDFLAGS)
171	- STARlong : Depend.list parametersDefault.xxd $(OBJECTS)
172	-- $(CXX) -o STARlong $(CXXFLAGS) $(OBJECTS) $(LDFLAGS)
173	-+ $(CXX) $(CXXFLAGS) $(CXXFLAGS_common) $(LDFLAGS) -o STARlong $(OBJECTS) $(LIBS) $(LIBS_common)
174	-
175	--STARlongStatic : CXXFLAGS := $(CXXFLAGSextra) $(CXXFLAGS_main) -D'COMPILE_FOR_LONG_READS' $(CXXFLAGS)
176	--STARlongStatic : LDFLAGS := $(LDFLAGSextra) $(LDFLAGS_static) $(LDFLAGS)
177	- STARlongStatic : Depend.list parametersDefault.xxd $(OBJECTS)
178	-- $(CXX) -o STARlong $(CXXFLAGS) $(OBJECTS) $(LDFLAGS)
179	-+ $(CXX) $(CXXFLAGS) $(CXXFLAGS_common) $(LDFLAGS) -o STARlong $(OBJECTS) $(LIBS) $(LIBS_common)
180	-
181	--gdb : CXXFLAGS := $(CXXFLAGSextra) $(CXXFLAGS_gdb) $(CXXFLAGS)
182	--gdb : LDFLAGS := $(LDFLAGSextra) $(LDFLAGS_gdb) $(LDFLAGS)
183	- gdb : Depend.list parametersDefault.xxd $(OBJECTS)
184	-- $(CXX) -o STAR $(CXXFLAGS) $(OBJECTS) $(LDFLAGS)
185	-+ $(CXX) $(CXXFLAGS) $(CXXFLAGS_common) $(LDFLAGS) -o STAR $(OBJECTS) $(LIBS) $(LIBS_common)
186	-
187	--gdb-long : CXXFLAGS := $(CXXFLAGSextra) $(CXXFLAGS_gdb) -D'COMPILE_FOR_LONG_READS' $(CXXFLAGS)
188	--gdb-long : LDFLAGS := $(LDFLAGSextra) $(LDFLAGS_gdb) $(LDFLAGS)
189	- gdb-long : Depend.list parametersDefault.xxd $(OBJECTS)
190	-- $(CXX) -o STARlong $(CXXFLAGS) $(OBJECTS) $(LDFLAGS)
191	-+ $(CXX) $(CXXFLAGS) $(CXXFLAGS_common) $(LDFLAGS) -o STARlong $(OBJECTS) $(LIBS) $(LIBS_common)
192	-
193	--STARforMacStatic : CXXFLAGS := $(CXXFLAGSextra) $(CXXFLAGS_main) -D'COMPILE_FOR_MAC' $(CXXFLAGS)
194	--STARforMacStatic : LDFLAGS := $(LDFLAGSextra) $(LDFLAGS_Mac_static) $(LDFLAGS)
195	- STARforMacStatic : Depend.list parametersDefault.xxd $(OBJECTS)
196	-- $(CXX) -o STAR $(CXXFLAGS) $(OBJECTS) $(LDFLAGS)
197	-+ $(CXX) $(CXXFLAGS) $(CXXFLAGS_common) $(LDFLAGS) -o STAR $(OBJECTS) $(LIBS) $(LIBS_common)
198	-
199	--STARlongForMacStatic : CXXFLAGS := -D'COMPILE_FOR_LONG_READS' $(CXXFLAGSextra) $(CXXFLAGS_main) -D'COMPILE_FOR_MAC' $(CXXFLAGS)
200	--STARlongForMacStatic : LDFLAGS := $(LDFLAGSextra) $(LDFLAGS_Mac_static) $(LDFLAGS)
201	- STARlongForMacStatic : Depend.list parametersDefault.xxd $(OBJECTS)
202	-- $(CXX) -o STARlong $(CXXFLAGS) $(OBJECTS) $(LDFLAGS)
203	-+ $(CXX) $(CXXFLAGS) $(CXXFLAGS_common) $(LDFLAGS) -o STARlong $(OBJECTS) $(LIBS) $(LIBS_common)
204	-
205	-

Gentoo Archives: gentoo-commits