1. CoGAPS
  2. .Rbuildignore
Browse code

ignore new object files in R builds

Tom Sherman authored on 24/06/2019 15:31:54
Showing 1 changed files
.Rbuildignore
History View file @ 76d74c345
... ... 
@@ -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
Showing 1 changed files
.Rbuildignore
History View file @ 974be59fb
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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
Showing 1 changed files
.Rbuildignore
History View file @ 844bb0021
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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
Browse code

added change log

Tom Sherman authored on 16/11/2018 18:02:25
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.Rbuildignore
History View file @ 19d9c68b9
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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/
Browse code

produce random stream for diehard testing - current gen passes

Tom Sherman authored on 30/10/2018 22:11:11
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.Rbuildignore
History View file @ 23f18ca83
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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
Browse code

make sure windows tests are passing

Tom Sherman authored on 30/10/2018 20:28:07
Showing 1 changed files
.Rbuildignore
History View file @ 433f18948
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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
Browse code

passing check

Tom Sherman authored on 29/10/2018 22:48:29
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.Rbuildignore
History View file @ 0fdf61673
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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
Showing 1 changed files
.Rbuildignore
History View file @ 75855f4f9
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
Showing 1 changed files
.Rbuildignore
History View file @ 1724b1230
... ... 
@@ -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
... ... 
@@ -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
Browse code

added more features to GWCoGAPS and scCoGAPS

Tom Sherman authored on 08/08/2018 22:34:56
Showing 1 changed files
.Rbuildignore
History View file @ 2c290a853
... ... 
@@ -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
Showing 1 changed files
.Rbuildignore
History View file @ c5bcadbc8
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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
Browse code

more complete configure step

Tom Sherman authored on 25/06/2018 14:44:23
Showing 1 changed files
.Rbuildignore
History View file @ 1c2034671
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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
... ... 
@@ -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
Browse code

restore serialization

Tom Sherman authored on 11/06/2018 23:46:44
Showing 1 changed files
.Rbuildignore
History View file @ 8269c03c8
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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
Browse code

passing checks

Tom Sherman authored on 05/06/2018 22:04:02
Showing 1 changed files
.Rbuildignore
History View file @ 080fd044e
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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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.Rbuildignore
History View file @ 2cfdfcd83
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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
Browse code

GAPSNorm cleanup

sherman5 authored on 30/11/2017 06:04:23
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.Rbuildignore
History View file @ f685f7db5
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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
Browse code

added basic benchmark structure

sherman5 authored on 29/11/2017 21:58:26
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.Rbuildignore
History View file @ 30d20d1af
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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
Browse code

Ignore Rstudio files

Jacob Carey authored on 01/06/2016 13:23:34
Showing 1 changed files
.Rbuildignore
History View file @ ec13fb075
... ... 
@@ -2,3 +2,5 @@
2 2 
 ^appveyor\.yml$
3 3 
 ^\.lintr$
4 4 
 ^\.astylerc$
5 
+^.*\.Rproj$
6 
+^\.Rproj\.user$
Browse code

Ignore '.astylerc' when building package

Jacob Carey authored on 05/01/2016 03:05:50
Showing 1 changed files
.Rbuildignore
History View file @ 602960e6f
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@@ -1,3 +1,4 @@
1 1 
 ^\.travis\.yml$
2 2 
 ^appveyor\.yml$
3 3 
 ^\.lintr$
4 
+^\.astylerc$
Browse code

Ignore lintr when building with R

Jacob Carey authored on 28/12/2015 18:26:40
Showing 1 changed files
.Rbuildignore
History View file @ 8ada21d95
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@@ -1,2 +1,3 @@
1 1 
 ^\.travis\.yml$
2 2 
 ^appveyor\.yml$
3 
+^\.lintr$
Browse code

Add AppVeyor for testing windows builds

Jacob Carey authored on 28/12/2015 14:54:46
Showing 1 changed files
.Rbuildignore
History View file @ 2a5fc6ac7
... ... 
@@ -1 +1,2 @@
1 1 
 ^\.travis\.yml$
2 
+^appveyor\.yml$
Browse code

Add Travis CI integration

Jacob Carey authored on 18/12/2015 21:13:40
Showing 1 changed files
.Rbuildignore
History View file @ aab4dedf5
1 1 
new file mode 100644
... ... 
@@ -0,0 +1 @@
1 
+^\.travis\.yml$