Browse code

ignore new object files in R builds

Tom Sherman authored on 24/06/2019 15:31:54
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@@ -56,5 +56,12 @@
56 56
 ^src/math/MatrixMath.o
57 57
 ^src/math/Random.o
58 58
 ^src/math/VectorMath.o
59
+^src/atomic/Atom.o
60
+^src/atomic/ConcurrentAtom.o
61
+^src/atomic/ConcurrentAtomicDomain.o
62
+^src/file_parser/CharacterDelimitedParser.o
63
+^src/file_parser/MatrixElement.o
64
+^src/gibbs_sampler/DenseNormalModel.o
65
+^src/gibbs_sampler/SparseNormalModel.o
59 66
 
60 67
 ^src/math/VectorMath\.o$
Browse code

fixed windows build issues

Tom Sherman authored on 08/02/2019 20:08:59
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@@ -20,28 +20,8 @@
20 20
 ^src/GapsStatistics.o
21 21
 ^src/RcppExports.o
22 22
 ^src/test-runner.o
23
-^src/atomic/AtomAllocator.o
24 23
 ^src/atomic/AtomicDomain.o
25 24
 ^src/atomic/ProposalQueue.o
26
-^src/data_structures/HashSets.o
27
-^src/data_structures/HybridMatrix.o
28
-^src/data_structures/HybridVector.o
29
-^src/data_structures/Matrix.o
30
-^src/data_structures/SparseIterator.o
31
-^src/data_structures/SparseMatrix.o
32
-^src/data_structures/SparseVector.o
33
-^src/data_structures/Vector.o
34
-^src/file_parser/CsvParser.o
35
-^src/file_parser/GctParser.o
36
-^src/file_parser/FileParser.o
37
-^src/file_parser/TsvParser.o
38
-^src/file_parser/MtxParser.o
39
-^src/gibbs_sampler/DenseGibbsSampler.o
40
-^src/gibbs_sampler/SparseGibbsSampler.o
41
-^src/math/Math.o
42
-^src/math/MatrixMath.o
43
-^src/math/Random.o
44
-^src/math/VectorMath.o
45 25
 ^src/cpp_tests/testAtomicDomain.o
46 26
 ^src/cpp_tests/testDenseGibbsSampler.o
47 27
 ^src/cpp_tests/testFileParsers.o
... ...
@@ -56,6 +36,25 @@
56 36
 ^src/cpp_tests/testSparseMatrix.o
57 37
 ^src/cpp_tests/testSparseVector.o
58 38
 ^src/cpp_tests/testVector.o
39
+^src/data_structures/HashSets.o
40
+^src/data_structures/HybridMatrix.o
41
+^src/data_structures/HybridVector.o
42
+^src/data_structures/Matrix.o
43
+^src/data_structures/SparseIterator.o
44
+^src/data_structures/SparseMatrix.o
45
+^src/data_structures/SparseVector.o
46
+^src/data_structures/Vector.o
47
+^src/file_parser/CsvParser.o
48
+^src/file_parser/GctParser.o
49
+^src/file_parser/FileParser.o
50
+^src/file_parser/TsvParser.o
51
+^src/file_parser/MtxParser.o
59 52
 ^src/gibbs_sampler/AlphaParameters.o
60 53
 ^src/gibbs_sampler/DenseStoragePolicy.o
61 54
 ^src/gibbs_sampler/SparseStoragePolicy.o
55
+^src/math/Math.o
56
+^src/math/MatrixMath.o
57
+^src/math/Random.o
58
+^src/math/VectorMath.o
59
+
60
+^src/math/VectorMath\.o$
Browse code

ignore build files

Tom Sherman authored on 31/01/2019 21:41:38
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@@ -55,4 +55,7 @@
55 55
 ^src/cpp_tests/testSparseIterator.o
56 56
 ^src/cpp_tests/testSparseMatrix.o
57 57
 ^src/cpp_tests/testSparseVector.o
58
-^src/cpp_tests/testVector.o
59 58
\ No newline at end of file
59
+^src/cpp_tests/testVector.o
60
+^src/gibbs_sampler/AlphaParameters.o
61
+^src/gibbs_sampler/DenseStoragePolicy.o
62
+^src/gibbs_sampler/SparseStoragePolicy.o
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added change log

Tom Sherman authored on 16/11/2018 18:02:25
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@@ -4,6 +4,7 @@
4 4
 ^\.astylerc$
5 5
 ^.*\.Rproj$
6 6
 ^\.Rproj\.user$
7
+^ChangeLog
7 8
 
8 9
 ^inst/benchmarks/
9 10
 ^inst/profiling/
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produce random stream for diehard testing - current gen passes

Tom Sherman authored on 30/10/2018 22:11:11
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@@ -11,6 +11,7 @@
11 11
 
12 12
 ^.git
13 13
 
14
+^src/Makevars(?!.in$|.win$)
14 15
 ^src/Cogaps.o
15 16
 ^src/GapsParameters.o
16 17
 ^src/GapsResult.o
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make sure windows tests are passing

Tom Sherman authored on 30/10/2018 20:28:07
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@@ -11,7 +11,6 @@
11 11
 
12 12
 ^.git
13 13
 
14
-^src/Makevars((?!\.in))
15 14
 ^src/Cogaps.o
16 15
 ^src/GapsParameters.o
17 16
 ^src/GapsResult.o
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passing check

Tom Sherman authored on 29/10/2018 22:48:29
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@@ -12,33 +12,46 @@
12 12
 ^.git
13 13
 
14 14
 ^src/Makevars((?!\.in))
15
-^src/AtomicDomain.o
16 15
 ^src/Cogaps.o
16
+^src/GapsParameters.o
17
+^src/GapsResult.o
17 18
 ^src/GapsRunner.o
18 19
 ^src/GapsStatistics.o
19
-^src/GibbsSampler.o
20
-^src/ProposalQueue.o
21 20
 ^src/RcppExports.o
22 21
 ^src/test-runner.o
22
+^src/atomic/AtomAllocator.o
23
+^src/atomic/AtomicDomain.o
24
+^src/atomic/ProposalQueue.o
23 25
 ^src/data_structures/HashSets.o
26
+^src/data_structures/HybridMatrix.o
27
+^src/data_structures/HybridVector.o
24 28
 ^src/data_structures/Matrix.o
29
+^src/data_structures/SparseIterator.o
30
+^src/data_structures/SparseMatrix.o
31
+^src/data_structures/SparseVector.o
25 32
 ^src/data_structures/Vector.o
26
-^src/file_parser/FileParser.o
27 33
 ^src/file_parser/CsvParser.o
28 34
 ^src/file_parser/GctParser.o
35
+^src/file_parser/FileParser.o
29 36
 ^src/file_parser/TsvParser.o
30 37
 ^src/file_parser/MtxParser.o
31
-^src/math/Algorithms.o
38
+^src/gibbs_sampler/DenseGibbsSampler.o
39
+^src/gibbs_sampler/SparseGibbsSampler.o
32 40
 ^src/math/Math.o
41
+^src/math/MatrixMath.o
33 42
 ^src/math/Random.o
34
-^src/math/SIMD.o
35
-^src/cpp_tests/testAlgorithms.o
43
+^src/math/VectorMath.o
36 44
 ^src/cpp_tests/testAtomicDomain.o
37
-^src/cpp_tests/testEfficientSets.o
45
+^src/cpp_tests/testDenseGibbsSampler.o
38 46
 ^src/cpp_tests/testFileParsers.o
39
-^src/cpp_tests/testGapsRunner.o
40
-^src/cpp_tests/testGibbsSampler.o
47
+^src/cpp_tests/testHashSets.o
48
+^src/cpp_tests/testHybridMatrix.o
49
+^src/cpp_tests/testHybridVector.o
41 50
 ^src/cpp_tests/testMatrix.o
42
-^src/cpp_tests/testProposalQueue.o
43 51
 ^src/cpp_tests/testRandom.o
44
-^src/cpp_tests/testSerialization.o
45 52
\ No newline at end of file
53
+^src/cpp_tests/testSerialization.o
54
+^src/cpp_tests/testSparseGibbsSampler.o
55
+^src/cpp_tests/testSparseIterator.o
56
+^src/cpp_tests/testSparseMatrix.o
57
+^src/cpp_tests/testSparseVector.o
58
+^src/cpp_tests/testVector.o
46 59
\ No newline at end of file
Browse code

updated git config so that permissions get committed

Tom Sherman authored on 29/10/2018 20:03:19
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1 1
old mode 100644
2 2
new mode 100755
Browse code

ignore new files

Tom Sherman authored on 13/09/2018 19:09:08
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@@ -11,6 +11,7 @@
11 11
 
12 12
 ^.git
13 13
 
14
+^src/Makevars((?!\.in))
14 15
 ^src/AtomicDomain.o
15 16
 ^src/Cogaps.o
16 17
 ^src/GapsRunner.o
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@@ -19,6 +20,7 @@
19 20
 ^src/ProposalQueue.o
20 21
 ^src/RcppExports.o
21 22
 ^src/test-runner.o
23
+^src/data_structures/HashSets.o
22 24
 ^src/data_structures/Matrix.o
23 25
 ^src/data_structures/Vector.o
24 26
 ^src/file_parser/FileParser.o
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@@ -29,6 +31,7 @@
29 31
 ^src/math/Algorithms.o
30 32
 ^src/math/Math.o
31 33
 ^src/math/Random.o
34
+^src/math/SIMD.o
32 35
 ^src/cpp_tests/testAlgorithms.o
33 36
 ^src/cpp_tests/testAtomicDomain.o
34 37
 ^src/cpp_tests/testEfficientSets.o
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added more features to GWCoGAPS and scCoGAPS

Tom Sherman authored on 08/08/2018 22:34:56
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@@ -23,6 +23,7 @@
23 23
 ^src/data_structures/Vector.o
24 24
 ^src/file_parser/FileParser.o
25 25
 ^src/file_parser/CsvParser.o
26
+^src/file_parser/GctParser.o
26 27
 ^src/file_parser/TsvParser.o
27 28
 ^src/file_parser/MtxParser.o
28 29
 ^src/math/Algorithms.o
Browse code

clean up output

Tom Sherman authored on 02/08/2018 16:52:31
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@@ -26,6 +26,7 @@
26 26
 ^src/file_parser/TsvParser.o
27 27
 ^src/file_parser/MtxParser.o
28 28
 ^src/math/Algorithms.o
29
+^src/math/Math.o
29 30
 ^src/math/Random.o
30 31
 ^src/cpp_tests/testAlgorithms.o
31 32
 ^src/cpp_tests/testAtomicDomain.o
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more complete configure step

Tom Sherman authored on 25/06/2018 14:44:23
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@@ -9,6 +9,8 @@
9 9
 ^inst/profiling/
10 10
 ^inst/vignettes/
11 11
 
12
+^.git
13
+
12 14
 ^src/AtomicDomain.o
13 15
 ^src/Cogaps.o
14 16
 ^src/GapsRunner.o
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@@ -19,6 +21,7 @@
19 21
 ^src/test-runner.o
20 22
 ^src/data_structures/Matrix.o
21 23
 ^src/data_structures/Vector.o
24
+^src/file_parser/FileParser.o
22 25
 ^src/file_parser/CsvParser.o
23 26
 ^src/file_parser/TsvParser.o
24 27
 ^src/file_parser/MtxParser.o
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restore serialization

Tom Sherman authored on 11/06/2018 23:46:44
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@@ -32,4 +32,5 @@
32 32
 ^src/cpp_tests/testGibbsSampler.o
33 33
 ^src/cpp_tests/testMatrix.o
34 34
 ^src/cpp_tests/testProposalQueue.o
35
-^src/cpp_tests/testRandom.o
36 35
\ No newline at end of file
36
+^src/cpp_tests/testRandom.o
37
+^src/cpp_tests/testSerialization.o
37 38
\ No newline at end of file
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passing checks

Tom Sherman authored on 05/06/2018 22:04:02
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@@ -9,17 +9,27 @@
9 9
 ^inst/profiling/
10 10
 ^inst/vignettes/
11 11
 
12
-^src/Algorithms.o
13
-^src/AtomicSupport.o
12
+^src/AtomicDomain.o
14 13
 ^src/Cogaps.o
14
+^src/GapsRunner.o
15
+^src/GapsStatistics.o
15 16
 ^src/GibbsSampler.o
16
-^src/Matrix.o
17
-^src/Random.o
17
+^src/ProposalQueue.o
18 18
 ^src/RcppExports.o
19 19
 ^src/test-runner.o
20
+^src/data_structures/Matrix.o
21
+^src/data_structures/Vector.o
22
+^src/file_parser/CsvParser.o
23
+^src/file_parser/TsvParser.o
24
+^src/file_parser/MtxParser.o
25
+^src/math/Algorithms.o
26
+^src/math/Random.o
20 27
 ^src/cpp_tests/testAlgorithms.o
21
-^src/cpp_tests/testAtomicSupport.o
28
+^src/cpp_tests/testAtomicDomain.o
29
+^src/cpp_tests/testEfficientSets.o
30
+^src/cpp_tests/testFileParsers.o
31
+^src/cpp_tests/testGapsRunner.o
22 32
 ^src/cpp_tests/testGibbsSampler.o
23 33
 ^src/cpp_tests/testMatrix.o
24
-^src/cpp_tests/testRandom.o
25
-^src/cpp_tests/testSerialization.o
26 34
\ No newline at end of file
35
+^src/cpp_tests/testProposalQueue.o
36
+^src/cpp_tests/testRandom.o
27 37
\ No newline at end of file
Browse code

clean up some warnings/errors from package check

sherman5 authored on 17/01/2018 18:57:26
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@@ -4,5 +4,22 @@
4 4
 ^\.astylerc$
5 5
 ^.*\.Rproj$
6 6
 ^\.Rproj\.user$
7
+
7 8
 ^inst/benchmarks/
8
-^inst/profiling/
9 9
\ No newline at end of file
10
+^inst/profiling/
11
+^inst/vignettes/
12
+
13
+^src/Algorithms.o
14
+^src/AtomicSupport.o
15
+^src/Cogaps.o
16
+^src/GibbsSampler.o
17
+^src/Matrix.o
18
+^src/Random.o
19
+^src/RcppExports.o
20
+^src/test-runner.o
21
+^src/cpp_tests/testAlgorithms.o
22
+^src/cpp_tests/testAtomicSupport.o
23
+^src/cpp_tests/testGibbsSampler.o
24
+^src/cpp_tests/testMatrix.o
25
+^src/cpp_tests/testRandom.o
26
+^src/cpp_tests/testSerialization.o
10 27
\ No newline at end of file
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GAPSNorm cleanup

sherman5 authored on 30/11/2017 06:04:23
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@@ -4,4 +4,5 @@
4 4
 ^\.astylerc$
5 5
 ^.*\.Rproj$
6 6
 ^\.Rproj\.user$
7
-^inst/benchmarks/
8 7
\ No newline at end of file
8
+^inst/benchmarks/
9
+^inst/profiling/
9 10
\ No newline at end of file
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added basic benchmark structure

sherman5 authored on 29/11/2017 21:58:26
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@@ -4,3 +4,4 @@
4 4
 ^\.astylerc$
5 5
 ^.*\.Rproj$
6 6
 ^\.Rproj\.user$
7
+^inst/benchmarks/
7 8
\ No newline at end of file
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Ignore Rstudio files

Jacob Carey authored on 01/06/2016 13:23:34
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@@ -2,3 +2,5 @@
2 2
 ^appveyor\.yml$
3 3
 ^\.lintr$
4 4
 ^\.astylerc$
5
+^.*\.Rproj$
6
+^\.Rproj\.user$
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Ignore '.astylerc' when building package

Jacob Carey authored on 05/01/2016 03:05:50
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@@ -1,3 +1,4 @@
1 1
 ^\.travis\.yml$
2 2
 ^appveyor\.yml$
3 3
 ^\.lintr$
4
+^\.astylerc$
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Ignore lintr when building with R

Jacob Carey authored on 28/12/2015 18:26:40
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@@ -1,2 +1,3 @@
1 1
 ^\.travis\.yml$
2 2
 ^appveyor\.yml$
3
+^\.lintr$
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Add AppVeyor for testing windows builds

Jacob Carey authored on 28/12/2015 14:54:46
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@@ -1 +1,2 @@
1 1
 ^\.travis\.yml$
2
+^appveyor\.yml$
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Add Travis CI integration

Jacob Carey authored on 18/12/2015 21:13:40
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1 1
new file mode 100644
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@@ -0,0 +1 @@
1
+^\.travis\.yml$