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commit: 61094665a0622c77dea66a04ec74b5e4fd71bb46 |
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Author: Justin Lecher <jlec <AT> gentoo <DOT> org> |
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AuthorDate: Sat Apr 29 09:50:07 2017 +0000 |
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Commit: Justin Lecher <jlec <AT> gentoo <DOT> org> |
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CommitDate: Sat Apr 29 09:50:24 2017 +0000 |
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URL: https://gitweb.gentoo.org/proj/sci.git/commit/?id=61094665 |
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|
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Update remote ids |
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|
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Signed-off-by: Justin Lecher <jlec <AT> gentoo.org> |
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|
12 |
dev-java/htsjdk/metadata.xml | 3 ++- |
13 |
dev-libs/opencl-clhpp/metadata.xml | 7 +++++-- |
14 |
dev-python/PeakUtils/metadata.xml | 3 ++- |
15 |
dev-python/busfactor/metadata.xml | 3 +++ |
16 |
dev-python/ffnet/metadata.xml | 6 ++++-- |
17 |
dev-python/ffnetui/metadata.xml | 6 ++++-- |
18 |
dev-python/gitana/metadata.xml | 3 +++ |
19 |
dev-python/matplotlib-venn/metadata.xml | 3 ++- |
20 |
dev-python/py2bit/metadata.xml | 5 ++++- |
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dev-python/pyBigWig/metadata.xml | 5 ++++- |
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dev-python/shove/metadata.xml | 5 ++++- |
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dev-python/snakemake/metadata.xml | 4 +++- |
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dev-util/emscripten-fastcomp/metadata.xml | 5 ++++- |
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dev-util/emscripten/metadata.xml | 5 ++++- |
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dev-util/mad-numdiff/metadata.xml | 5 ++++- |
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sci-biology/Fastaq/metadata.xml | 5 ++++- |
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sci-biology/MolBioLib/metadata.xml | 5 ++++- |
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sci-biology/Rcorrector/metadata.xml | 7 +++++-- |
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sci-biology/Scaffolder-evaluation/metadata.xml | 5 ++++- |
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sci-biology/SnpEff/metadata.xml | 5 ++++- |
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sci-biology/VarScan-bin/metadata.xml | 3 ++- |
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sci-biology/VarScan/metadata.xml | 3 ++- |
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sci-biology/assembly-stats/metadata.xml | 5 ++++- |
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sci-biology/bam-readcount/metadata.xml | 5 ++++- |
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sci-biology/bfast/metadata.xml | 5 ++++- |
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sci-biology/bio-cd-hit-report/metadata.xml | 5 ++++- |
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sci-biology/cd-hit/metadata.xml | 5 +++-- |
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sci-biology/conrad/metadata.xml | 5 ++++- |
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sci-biology/cramtools/metadata.xml | 5 ++++- |
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sci-biology/cross_genome/metadata.xml | 5 ++++- |
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sci-biology/cutadapt/metadata.xml | 3 ++- |
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sci-biology/deeptools/metadata.xml | 5 ++++- |
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sci-biology/ensembl-tools/metadata.xml | 5 ++++- |
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sci-biology/fgap-bin/metadata.xml | 5 ++++- |
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sci-biology/fgap/metadata.xml | 5 ++++- |
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sci-biology/flexbar/metadata.xml | 3 ++- |
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sci-biology/gemini/metadata.xml | 5 ++++- |
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sci-biology/grabix/metadata.xml | 5 ++++- |
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sci-biology/grass/metadata.xml | 7 +++++-- |
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sci-biology/hisat2/metadata.xml | 5 ++++- |
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sci-biology/hts-python/metadata.xml | 5 ++++- |
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sci-biology/jannovar-bin/metadata.xml | 7 +++++-- |
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sci-biology/jannovar/metadata.xml | 5 ++++- |
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sci-biology/jtreeview-bin/metadata.xml | 5 ++++- |
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sci-biology/jtreeview/metadata.xml | 3 ++- |
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sci-biology/karect/metadata.xml | 5 ++++- |
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sci-biology/kat/metadata.xml | 5 ++++- |
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sci-biology/libBigWig/metadata.xml | 5 ++++- |
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sci-biology/lumpy-sv/metadata.xml | 5 ++++- |
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sci-biology/megahit/metadata.xml | 5 ++++- |
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sci-biology/mothur/metadata.xml | 5 ++++- |
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sci-biology/nilearn/metadata.xml | 3 ++- |
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sci-biology/nwalign/metadata.xml | 7 +++++-- |
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sci-biology/nxtrim/metadata.xml | 5 ++++- |
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sci-biology/oncotator/metadata.xml | 5 ++++- |
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sci-biology/perga/metadata.xml | 5 ++++- |
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sci-biology/phusion2/metadata.xml | 7 +++++-- |
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sci-biology/picard/metadata.xml | 3 ++- |
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sci-biology/prinseq-lite/metadata.xml | 5 ++++- |
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sci-biology/psychopy/metadata.xml | 3 ++- |
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sci-biology/pybrain/metadata.xml | 5 ++++- |
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sci-biology/pysamstats/metadata.xml | 6 +++++- |
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sci-biology/ruffus/metadata.xml | 7 +++++-- |
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sci-biology/sambamba/metadata.xml | 5 ++++- |
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sci-biology/scbi_blast/metadata.xml | 3 ++- |
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sci-biology/scbi_fasta/metadata.xml | 3 ++- |
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sci-biology/scbi_fastq/metadata.xml | 5 ++++- |
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sci-biology/scbi_mapreduce/metadata.xml | 3 ++- |
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sci-biology/scbi_plot/metadata.xml | 3 ++- |
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sci-biology/scbi_zcat/metadata.xml | 5 ++++- |
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sci-biology/smalt/metadata.xml | 7 +++++-- |
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sci-biology/snpomatic/metadata.xml | 5 ++++- |
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sci-biology/somatic-sniper/metadata.xml | 5 ++++- |
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sci-biology/staden_doc/metadata.xml | 5 ++++- |
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sci-biology/stringtie/metadata.xml | 5 ++++- |
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sci-biology/vcflib/metadata.xml | 5 ++++- |
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sci-biology/vcftools/metadata.xml | 3 ++- |
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sci-biology/verifyBamID/metadata.xml | 5 ++++- |
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sci-biology/vt/metadata.xml | 5 ++++- |
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sci-biology/yaha/metadata.xml | 5 ++++- |
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sci-chemistry/wxmacmolplt/metadata.xml | 5 ++++- |
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sci-libs/arrayfire/metadata.xml | 5 ++++- |
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sci-libs/bloom/metadata.xml | 7 +++++-- |
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sci-libs/dtk/metadata.xml | 3 +++ |
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sci-libs/lib2bit/metadata.xml | 5 ++++- |
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sci-libs/libStatGen/metadata.xml | 5 ++++- |
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sci-libs/lmfit/metadata.xml | 5 ++++- |
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sci-libs/nexus/metadata.xml | 5 ++++- |
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sci-libs/nipype/metadata.xml | 3 ++- |
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sci-libs/pmx/metadata.xml | 5 ++++- |
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sci-libs/shtools/metadata.xml | 5 ++++- |
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sci-mathematics/dolfin/metadata.xml | 11 ++++++----- |
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sci-mathematics/mathics/metadata.xml | 5 ++++- |
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sci-mathematics/tisean/metadata.xml | 5 ++++- |
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sci-misc/mitlm/metadata.xml | 7 +++++-- |
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95 files changed, 354 insertions(+), 109 deletions(-) |
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|
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diff --git a/dev-java/htsjdk/metadata.xml b/dev-java/htsjdk/metadata.xml |
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index 513e8631c..6c001f352 100644 |
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--- a/dev-java/htsjdk/metadata.xml |
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+++ b/dev-java/htsjdk/metadata.xml |
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@@ -1,4 +1,4 @@ |
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-<?xml version="1.0" encoding="UTF-8"?> |
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+<?xml version='1.0' encoding='UTF-8'?> |
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<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> |
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<pkgmetadata> |
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<maintainer type="person"> |
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@@ -11,5 +11,6 @@ |
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</maintainer> |
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<upstream> |
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<remote-id type="sourceforge">picard</remote-id> |
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+ <remote-id type="github">samtools/htsjdk</remote-id> |
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</upstream> |
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</pkgmetadata> |
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|
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diff --git a/dev-libs/opencl-clhpp/metadata.xml b/dev-libs/opencl-clhpp/metadata.xml |
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index 222c1e307..5ef422065 100644 |
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--- a/dev-libs/opencl-clhpp/metadata.xml |
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+++ b/dev-libs/opencl-clhpp/metadata.xml |
131 |
@@ -1,4 +1,4 @@ |
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-<?xml version="1.0" encoding="UTF-8"?> |
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+<?xml version='1.0' encoding='UTF-8'?> |
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<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> |
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<pkgmetadata> |
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<maintainer type="person"> |
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@@ -9,4 +9,7 @@ |
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<email>sci@g.o</email> |
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<name>Gentoo Science Project</name> |
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</maintainer> |
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-</pkgmetadata> |
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\ No newline at end of file |
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+ <upstream> |
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+ <remote-id type="github">KhronosGroup/OpenCL-CLHPP</remote-id> |
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+ </upstream> |
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+</pkgmetadata> |
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|
148 |
diff --git a/dev-python/PeakUtils/metadata.xml b/dev-python/PeakUtils/metadata.xml |
149 |
index c39ab9b4e..a4c17d458 100644 |
150 |
--- a/dev-python/PeakUtils/metadata.xml |
151 |
+++ b/dev-python/PeakUtils/metadata.xml |
152 |
@@ -1,4 +1,4 @@ |
153 |
-<?xml version="1.0" encoding="UTF-8"?> |
154 |
+<?xml version='1.0' encoding='UTF-8'?> |
155 |
<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> |
156 |
<pkgmetadata> |
157 |
<maintainer type="project"> |
158 |
@@ -14,5 +14,6 @@ |
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</longdescription> |
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<upstream> |
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<remote-id type="pypi">PeakUtils</remote-id> |
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+ <remote-id type="bitbucket">lucashnegri/peakutils</remote-id> |
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</upstream> |
164 |
</pkgmetadata> |
165 |
|
166 |
diff --git a/dev-python/busfactor/metadata.xml b/dev-python/busfactor/metadata.xml |
167 |
index ec9fa9d47..edbc63649 100644 |
168 |
--- a/dev-python/busfactor/metadata.xml |
169 |
+++ b/dev-python/busfactor/metadata.xml |
170 |
@@ -9,4 +9,7 @@ |
171 |
<email>sci@g.o</email> |
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<name>Gentoo Science Project</name> |
173 |
</maintainer> |
174 |
+ <upstream> |
175 |
+ <remote-id type="github">SOM-Research/busfactor</remote-id> |
176 |
+ </upstream> |
177 |
</pkgmetadata> |
178 |
|
179 |
diff --git a/dev-python/ffnet/metadata.xml b/dev-python/ffnet/metadata.xml |
180 |
index e40054cae..81dcc789e 100644 |
181 |
--- a/dev-python/ffnet/metadata.xml |
182 |
+++ b/dev-python/ffnet/metadata.xml |
183 |
@@ -1,4 +1,4 @@ |
184 |
-<?xml version="1.0" encoding="UTF-8"?> |
185 |
+<?xml version='1.0' encoding='UTF-8'?> |
186 |
<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> |
187 |
<pkgmetadata> |
188 |
<maintainer type="project"> |
189 |
@@ -8,11 +8,13 @@ |
190 |
<longdescription lang="en"> |
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ffnet is a fast and easy-to-use feed-forward neural |
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network training library for python. |
193 |
-</longdescription> |
194 |
+ </longdescription> |
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<use> |
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<flag name="matplotlib">Use matplotlib for drawing</flag> |
197 |
</use> |
198 |
<upstream> |
199 |
<remote-id type="github">mrkwjc/ffnet</remote-id> |
200 |
+ <remote-id type="pypi">ffnet</remote-id> |
201 |
+ <remote-id type="sourceforge">ffnet</remote-id> |
202 |
</upstream> |
203 |
</pkgmetadata> |
204 |
|
205 |
diff --git a/dev-python/ffnetui/metadata.xml b/dev-python/ffnetui/metadata.xml |
206 |
index 6e1e5f91c..50cd8d0c5 100644 |
207 |
--- a/dev-python/ffnetui/metadata.xml |
208 |
+++ b/dev-python/ffnetui/metadata.xml |
209 |
@@ -1,4 +1,4 @@ |
210 |
-<?xml version="1.0" encoding="UTF-8"?> |
211 |
+<?xml version='1.0' encoding='UTF-8'?> |
212 |
<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> |
213 |
<pkgmetadata> |
214 |
<maintainer type="project"> |
215 |
@@ -7,8 +7,10 @@ |
216 |
</maintainer> |
217 |
<longdescription lang="en"> |
218 |
GUI for ffnet - feed forward neural network for python |
219 |
-</longdescription> |
220 |
+ </longdescription> |
221 |
<upstream> |
222 |
<remote-id type="github">mrkwjc/ffnetui</remote-id> |
223 |
+ <remote-id type="pypi">ffnetui</remote-id> |
224 |
+ <remote-id type="sourceforge">ffnet</remote-id> |
225 |
</upstream> |
226 |
</pkgmetadata> |
227 |
|
228 |
diff --git a/dev-python/gitana/metadata.xml b/dev-python/gitana/metadata.xml |
229 |
index ec9fa9d47..221a98348 100644 |
230 |
--- a/dev-python/gitana/metadata.xml |
231 |
+++ b/dev-python/gitana/metadata.xml |
232 |
@@ -9,4 +9,7 @@ |
233 |
<email>sci@g.o</email> |
234 |
<name>Gentoo Science Project</name> |
235 |
</maintainer> |
236 |
+ <upstream> |
237 |
+ <remote-id type="github">SOM-Research/gitana</remote-id> |
238 |
+ </upstream> |
239 |
</pkgmetadata> |
240 |
|
241 |
diff --git a/dev-python/matplotlib-venn/metadata.xml b/dev-python/matplotlib-venn/metadata.xml |
242 |
index 01447d81f..8401ce8b5 100644 |
243 |
--- a/dev-python/matplotlib-venn/metadata.xml |
244 |
+++ b/dev-python/matplotlib-venn/metadata.xml |
245 |
@@ -1,4 +1,4 @@ |
246 |
-<?xml version="1.0" encoding="UTF-8"?> |
247 |
+<?xml version='1.0' encoding='UTF-8'?> |
248 |
<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> |
249 |
<pkgmetadata> |
250 |
<maintainer type="project"> |
251 |
@@ -7,5 +7,6 @@ |
252 |
</maintainer> |
253 |
<upstream> |
254 |
<remote-id type="github">matplotlib-venn</remote-id> |
255 |
+ <remote-id type="pypi">matplotlib-venn</remote-id> |
256 |
</upstream> |
257 |
</pkgmetadata> |
258 |
|
259 |
diff --git a/dev-python/py2bit/metadata.xml b/dev-python/py2bit/metadata.xml |
260 |
index f68a1b6fa..71d7d5a6a 100644 |
261 |
--- a/dev-python/py2bit/metadata.xml |
262 |
+++ b/dev-python/py2bit/metadata.xml |
263 |
@@ -1,4 +1,4 @@ |
264 |
-<?xml version="1.0" encoding="UTF-8"?> |
265 |
+<?xml version='1.0' encoding='UTF-8'?> |
266 |
<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> |
267 |
<pkgmetadata> |
268 |
<maintainer type="person"> |
269 |
@@ -9,4 +9,7 @@ |
270 |
<email>sci-biology@g.o</email> |
271 |
<name>Gentoo Biology Project</name> |
272 |
</maintainer> |
273 |
+ <upstream> |
274 |
+ <remote-id type="github">dpryan79/py2bit</remote-id> |
275 |
+ </upstream> |
276 |
</pkgmetadata> |
277 |
|
278 |
diff --git a/dev-python/pyBigWig/metadata.xml b/dev-python/pyBigWig/metadata.xml |
279 |
index f68a1b6fa..764884a58 100644 |
280 |
--- a/dev-python/pyBigWig/metadata.xml |
281 |
+++ b/dev-python/pyBigWig/metadata.xml |
282 |
@@ -1,4 +1,4 @@ |
283 |
-<?xml version="1.0" encoding="UTF-8"?> |
284 |
+<?xml version='1.0' encoding='UTF-8'?> |
285 |
<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> |
286 |
<pkgmetadata> |
287 |
<maintainer type="person"> |
288 |
@@ -9,4 +9,7 @@ |
289 |
<email>sci-biology@g.o</email> |
290 |
<name>Gentoo Biology Project</name> |
291 |
</maintainer> |
292 |
+ <upstream> |
293 |
+ <remote-id type="github">dpryan79/pyBigWig</remote-id> |
294 |
+ </upstream> |
295 |
</pkgmetadata> |
296 |
|
297 |
diff --git a/dev-python/shove/metadata.xml b/dev-python/shove/metadata.xml |
298 |
index f68a1b6fa..a5faa4b26 100644 |
299 |
--- a/dev-python/shove/metadata.xml |
300 |
+++ b/dev-python/shove/metadata.xml |
301 |
@@ -1,4 +1,4 @@ |
302 |
-<?xml version="1.0" encoding="UTF-8"?> |
303 |
+<?xml version='1.0' encoding='UTF-8'?> |
304 |
<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> |
305 |
<pkgmetadata> |
306 |
<maintainer type="person"> |
307 |
@@ -9,4 +9,7 @@ |
308 |
<email>sci-biology@g.o</email> |
309 |
<name>Gentoo Biology Project</name> |
310 |
</maintainer> |
311 |
+ <upstream> |
312 |
+ <remote-id type="github">lcrees/shove</remote-id> |
313 |
+ </upstream> |
314 |
</pkgmetadata> |
315 |
|
316 |
diff --git a/dev-python/snakemake/metadata.xml b/dev-python/snakemake/metadata.xml |
317 |
index 63e701edd..9fb8f07d6 100644 |
318 |
--- a/dev-python/snakemake/metadata.xml |
319 |
+++ b/dev-python/snakemake/metadata.xml |
320 |
@@ -1,4 +1,4 @@ |
321 |
-<?xml version="1.0" encoding="UTF-8"?> |
322 |
+<?xml version='1.0' encoding='UTF-8'?> |
323 |
<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> |
324 |
<pkgmetadata> |
325 |
<maintainer type="person"> |
326 |
@@ -11,5 +11,7 @@ |
327 |
</maintainer> |
328 |
<upstream> |
329 |
<remote-id type="github">dev-python/snakemake</remote-id> |
330 |
+ <remote-id type="bitbucket">johanneskoester/snakemake</remote-id> |
331 |
+ <remote-id type="pypi">snakemake</remote-id> |
332 |
</upstream> |
333 |
</pkgmetadata> |
334 |
|
335 |
diff --git a/dev-util/emscripten-fastcomp/metadata.xml b/dev-util/emscripten-fastcomp/metadata.xml |
336 |
index d9e70962e..ee38ab80a 100644 |
337 |
--- a/dev-util/emscripten-fastcomp/metadata.xml |
338 |
+++ b/dev-util/emscripten-fastcomp/metadata.xml |
339 |
@@ -1,8 +1,11 @@ |
340 |
-<?xml version="1.0" encoding="UTF-8"?> |
341 |
+<?xml version='1.0' encoding='UTF-8'?> |
342 |
<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> |
343 |
<pkgmetadata> |
344 |
<maintainer type="person"> |
345 |
<email>harald.weiner@×××.at</email> |
346 |
<name>Harald Weiner</name> |
347 |
</maintainer> |
348 |
+ <upstream> |
349 |
+ <remote-id type="github">kripken/emscripten-fastcomp-clang</remote-id> |
350 |
+ </upstream> |
351 |
</pkgmetadata> |
352 |
|
353 |
diff --git a/dev-util/emscripten/metadata.xml b/dev-util/emscripten/metadata.xml |
354 |
index d9e70962e..bbd406949 100644 |
355 |
--- a/dev-util/emscripten/metadata.xml |
356 |
+++ b/dev-util/emscripten/metadata.xml |
357 |
@@ -1,8 +1,11 @@ |
358 |
-<?xml version="1.0" encoding="UTF-8"?> |
359 |
+<?xml version='1.0' encoding='UTF-8'?> |
360 |
<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> |
361 |
<pkgmetadata> |
362 |
<maintainer type="person"> |
363 |
<email>harald.weiner@×××.at</email> |
364 |
<name>Harald Weiner</name> |
365 |
</maintainer> |
366 |
+ <upstream> |
367 |
+ <remote-id type="github">kripken/emscripten</remote-id> |
368 |
+ </upstream> |
369 |
</pkgmetadata> |
370 |
|
371 |
diff --git a/dev-util/mad-numdiff/metadata.xml b/dev-util/mad-numdiff/metadata.xml |
372 |
index 7ec6883d7..729575510 100644 |
373 |
--- a/dev-util/mad-numdiff/metadata.xml |
374 |
+++ b/dev-util/mad-numdiff/metadata.xml |
375 |
@@ -1,4 +1,4 @@ |
376 |
-<?xml version="1.0" encoding="UTF-8"?> |
377 |
+<?xml version='1.0' encoding='UTF-8'?> |
378 |
<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> |
379 |
<pkgmetadata> |
380 |
<maintainer type="person"> |
381 |
@@ -9,4 +9,7 @@ |
382 |
<email>sci-physics@g.o</email> |
383 |
<name>Gentoo Physics Project</name> |
384 |
</maintainer> |
385 |
+ <upstream> |
386 |
+ <remote-id type="github">quinoacomputing/ndiff</remote-id> |
387 |
+ </upstream> |
388 |
</pkgmetadata> |
389 |
|
390 |
diff --git a/sci-biology/Fastaq/metadata.xml b/sci-biology/Fastaq/metadata.xml |
391 |
index f68a1b6fa..04b6bd54b 100644 |
392 |
--- a/sci-biology/Fastaq/metadata.xml |
393 |
+++ b/sci-biology/Fastaq/metadata.xml |
394 |
@@ -1,4 +1,4 @@ |
395 |
-<?xml version="1.0" encoding="UTF-8"?> |
396 |
+<?xml version='1.0' encoding='UTF-8'?> |
397 |
<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> |
398 |
<pkgmetadata> |
399 |
<maintainer type="person"> |
400 |
@@ -9,4 +9,7 @@ |
401 |
<email>sci-biology@g.o</email> |
402 |
<name>Gentoo Biology Project</name> |
403 |
</maintainer> |
404 |
+ <upstream> |
405 |
+ <remote-id type="github">sanger-pathogens/Fastaq</remote-id> |
406 |
+ </upstream> |
407 |
</pkgmetadata> |
408 |
|
409 |
diff --git a/sci-biology/MolBioLib/metadata.xml b/sci-biology/MolBioLib/metadata.xml |
410 |
index f68a1b6fa..cfa9e50ee 100644 |
411 |
--- a/sci-biology/MolBioLib/metadata.xml |
412 |
+++ b/sci-biology/MolBioLib/metadata.xml |
413 |
@@ -1,4 +1,4 @@ |
414 |
-<?xml version="1.0" encoding="UTF-8"?> |
415 |
+<?xml version='1.0' encoding='UTF-8'?> |
416 |
<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> |
417 |
<pkgmetadata> |
418 |
<maintainer type="person"> |
419 |
@@ -9,4 +9,7 @@ |
420 |
<email>sci-biology@g.o</email> |
421 |
<name>Gentoo Biology Project</name> |
422 |
</maintainer> |
423 |
+ <upstream> |
424 |
+ <remote-id type="sourceforge">molbiolib</remote-id> |
425 |
+ </upstream> |
426 |
</pkgmetadata> |
427 |
|
428 |
diff --git a/sci-biology/Rcorrector/metadata.xml b/sci-biology/Rcorrector/metadata.xml |
429 |
index 1699e58b2..7cca6fb36 100644 |
430 |
--- a/sci-biology/Rcorrector/metadata.xml |
431 |
+++ b/sci-biology/Rcorrector/metadata.xml |
432 |
@@ -1,12 +1,15 @@ |
433 |
-<?xml version="1.0" encoding="UTF-8"?> |
434 |
+<?xml version='1.0' encoding='UTF-8'?> |
435 |
<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> |
436 |
<pkgmetadata> |
437 |
<maintainer type="person"> |
438 |
<email>mmokrejs@×××××××××××××××.cz</email> |
439 |
<name>Martin Mokrejs</name> |
440 |
</maintainer> |
441 |
-<maintainer type="project"> |
442 |
+ <maintainer type="project"> |
443 |
<email>sci-biology@g.o</email> |
444 |
<name>Gentoo Biology Project</name> |
445 |
</maintainer> |
446 |
+ <upstream> |
447 |
+ <remote-id type="github">mourisl/Rcorrector</remote-id> |
448 |
+ </upstream> |
449 |
</pkgmetadata> |
450 |
|
451 |
diff --git a/sci-biology/Scaffolder-evaluation/metadata.xml b/sci-biology/Scaffolder-evaluation/metadata.xml |
452 |
index f68a1b6fa..ede9259b5 100644 |
453 |
--- a/sci-biology/Scaffolder-evaluation/metadata.xml |
454 |
+++ b/sci-biology/Scaffolder-evaluation/metadata.xml |
455 |
@@ -1,4 +1,4 @@ |
456 |
-<?xml version="1.0" encoding="UTF-8"?> |
457 |
+<?xml version='1.0' encoding='UTF-8'?> |
458 |
<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> |
459 |
<pkgmetadata> |
460 |
<maintainer type="person"> |
461 |
@@ -9,4 +9,7 @@ |
462 |
<email>sci-biology@g.o</email> |
463 |
<name>Gentoo Biology Project</name> |
464 |
</maintainer> |
465 |
+ <upstream> |
466 |
+ <remote-id type="github">martinghunt/Scaffolder-evaluation</remote-id> |
467 |
+ </upstream> |
468 |
</pkgmetadata> |
469 |
|
470 |
diff --git a/sci-biology/SnpEff/metadata.xml b/sci-biology/SnpEff/metadata.xml |
471 |
index f68a1b6fa..c7accda31 100644 |
472 |
--- a/sci-biology/SnpEff/metadata.xml |
473 |
+++ b/sci-biology/SnpEff/metadata.xml |
474 |
@@ -1,4 +1,4 @@ |
475 |
-<?xml version="1.0" encoding="UTF-8"?> |
476 |
+<?xml version='1.0' encoding='UTF-8'?> |
477 |
<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> |
478 |
<pkgmetadata> |
479 |
<maintainer type="person"> |
480 |
@@ -9,4 +9,7 @@ |
481 |
<email>sci-biology@g.o</email> |
482 |
<name>Gentoo Biology Project</name> |
483 |
</maintainer> |
484 |
+ <upstream> |
485 |
+ <remote-id type="sourceforge">snpeff</remote-id> |
486 |
+ </upstream> |
487 |
</pkgmetadata> |
488 |
|
489 |
diff --git a/sci-biology/VarScan-bin/metadata.xml b/sci-biology/VarScan-bin/metadata.xml |
490 |
index fae01f1fa..e27dba2e9 100644 |
491 |
--- a/sci-biology/VarScan-bin/metadata.xml |
492 |
+++ b/sci-biology/VarScan-bin/metadata.xml |
493 |
@@ -1,4 +1,4 @@ |
494 |
-<?xml version="1.0" encoding="UTF-8"?> |
495 |
+<?xml version='1.0' encoding='UTF-8'?> |
496 |
<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> |
497 |
<pkgmetadata> |
498 |
<maintainer type="project"> |
499 |
@@ -7,5 +7,6 @@ |
500 |
</maintainer> |
501 |
<upstream> |
502 |
<remote-id type="sourceforge">varscan</remote-id> |
503 |
+ <remote-id type="github">dkoboldt/varscan</remote-id> |
504 |
</upstream> |
505 |
</pkgmetadata> |
506 |
|
507 |
diff --git a/sci-biology/VarScan/metadata.xml b/sci-biology/VarScan/metadata.xml |
508 |
index fae01f1fa..e27dba2e9 100644 |
509 |
--- a/sci-biology/VarScan/metadata.xml |
510 |
+++ b/sci-biology/VarScan/metadata.xml |
511 |
@@ -1,4 +1,4 @@ |
512 |
-<?xml version="1.0" encoding="UTF-8"?> |
513 |
+<?xml version='1.0' encoding='UTF-8'?> |
514 |
<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> |
515 |
<pkgmetadata> |
516 |
<maintainer type="project"> |
517 |
@@ -7,5 +7,6 @@ |
518 |
</maintainer> |
519 |
<upstream> |
520 |
<remote-id type="sourceforge">varscan</remote-id> |
521 |
+ <remote-id type="github">dkoboldt/varscan</remote-id> |
522 |
</upstream> |
523 |
</pkgmetadata> |
524 |
|
525 |
diff --git a/sci-biology/assembly-stats/metadata.xml b/sci-biology/assembly-stats/metadata.xml |
526 |
index f68a1b6fa..e528fb05f 100644 |
527 |
--- a/sci-biology/assembly-stats/metadata.xml |
528 |
+++ b/sci-biology/assembly-stats/metadata.xml |
529 |
@@ -1,4 +1,4 @@ |
530 |
-<?xml version="1.0" encoding="UTF-8"?> |
531 |
+<?xml version='1.0' encoding='UTF-8'?> |
532 |
<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> |
533 |
<pkgmetadata> |
534 |
<maintainer type="person"> |
535 |
@@ -9,4 +9,7 @@ |
536 |
<email>sci-biology@g.o</email> |
537 |
<name>Gentoo Biology Project</name> |
538 |
</maintainer> |
539 |
+ <upstream> |
540 |
+ <remote-id type="github">martinghunt/assembly-stats</remote-id> |
541 |
+ </upstream> |
542 |
</pkgmetadata> |
543 |
|
544 |
diff --git a/sci-biology/bam-readcount/metadata.xml b/sci-biology/bam-readcount/metadata.xml |
545 |
index f68a1b6fa..2f50f6cb0 100644 |
546 |
--- a/sci-biology/bam-readcount/metadata.xml |
547 |
+++ b/sci-biology/bam-readcount/metadata.xml |
548 |
@@ -1,4 +1,4 @@ |
549 |
-<?xml version="1.0" encoding="UTF-8"?> |
550 |
+<?xml version='1.0' encoding='UTF-8'?> |
551 |
<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> |
552 |
<pkgmetadata> |
553 |
<maintainer type="person"> |
554 |
@@ -9,4 +9,7 @@ |
555 |
<email>sci-biology@g.o</email> |
556 |
<name>Gentoo Biology Project</name> |
557 |
</maintainer> |
558 |
+ <upstream> |
559 |
+ <remote-id type="github">genome/bam-readcount</remote-id> |
560 |
+ </upstream> |
561 |
</pkgmetadata> |
562 |
|
563 |
diff --git a/sci-biology/bfast/metadata.xml b/sci-biology/bfast/metadata.xml |
564 |
index f68a1b6fa..45f337087 100644 |
565 |
--- a/sci-biology/bfast/metadata.xml |
566 |
+++ b/sci-biology/bfast/metadata.xml |
567 |
@@ -1,4 +1,4 @@ |
568 |
-<?xml version="1.0" encoding="UTF-8"?> |
569 |
+<?xml version='1.0' encoding='UTF-8'?> |
570 |
<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> |
571 |
<pkgmetadata> |
572 |
<maintainer type="person"> |
573 |
@@ -9,4 +9,7 @@ |
574 |
<email>sci-biology@g.o</email> |
575 |
<name>Gentoo Biology Project</name> |
576 |
</maintainer> |
577 |
+ <upstream> |
578 |
+ <remote-id type="sourceforge">bfast</remote-id> |
579 |
+ </upstream> |
580 |
</pkgmetadata> |
581 |
|
582 |
diff --git a/sci-biology/bio-cd-hit-report/metadata.xml b/sci-biology/bio-cd-hit-report/metadata.xml |
583 |
index f68a1b6fa..ed211409a 100644 |
584 |
--- a/sci-biology/bio-cd-hit-report/metadata.xml |
585 |
+++ b/sci-biology/bio-cd-hit-report/metadata.xml |
586 |
@@ -1,4 +1,4 @@ |
587 |
-<?xml version="1.0" encoding="UTF-8"?> |
588 |
+<?xml version='1.0' encoding='UTF-8'?> |
589 |
<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> |
590 |
<pkgmetadata> |
591 |
<maintainer type="person"> |
592 |
@@ -9,4 +9,7 @@ |
593 |
<email>sci-biology@g.o</email> |
594 |
<name>Gentoo Biology Project</name> |
595 |
</maintainer> |
596 |
+ <upstream> |
597 |
+ <remote-id type="rubygems">bio-cd-hit-report</remote-id> |
598 |
+ </upstream> |
599 |
</pkgmetadata> |
600 |
|
601 |
diff --git a/sci-biology/cd-hit/metadata.xml b/sci-biology/cd-hit/metadata.xml |
602 |
index 2880d6633..1f3b07521 100644 |
603 |
--- a/sci-biology/cd-hit/metadata.xml |
604 |
+++ b/sci-biology/cd-hit/metadata.xml |
605 |
@@ -1,4 +1,4 @@ |
606 |
-<?xml version="1.0" encoding="UTF-8"?> |
607 |
+<?xml version='1.0' encoding='UTF-8'?> |
608 |
<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> |
609 |
<pkgmetadata> |
610 |
<maintainer type="project"> |
611 |
@@ -19,8 +19,9 @@ datasets and identifies the sequences in db2 that are similar to db1 above |
612 |
a threshold. CD-HIT-454 is a program to identify natural and artificial |
613 |
duplicates from pyrosequencing reads. The usage of other programs and |
614 |
scripts can be found in CD-HIT user's guide. |
615 |
-</longdescription> |
616 |
+ </longdescription> |
617 |
<upstream> |
618 |
<remote-id type="google-code">cdhit</remote-id> |
619 |
+ <remote-id type="github">weizhongli/cdhit</remote-id> |
620 |
</upstream> |
621 |
</pkgmetadata> |
622 |
|
623 |
diff --git a/sci-biology/conrad/metadata.xml b/sci-biology/conrad/metadata.xml |
624 |
index f68a1b6fa..8d38b0b1a 100644 |
625 |
--- a/sci-biology/conrad/metadata.xml |
626 |
+++ b/sci-biology/conrad/metadata.xml |
627 |
@@ -1,4 +1,4 @@ |
628 |
-<?xml version="1.0" encoding="UTF-8"?> |
629 |
+<?xml version='1.0' encoding='UTF-8'?> |
630 |
<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> |
631 |
<pkgmetadata> |
632 |
<maintainer type="person"> |
633 |
@@ -9,4 +9,7 @@ |
634 |
<email>sci-biology@g.o</email> |
635 |
<name>Gentoo Biology Project</name> |
636 |
</maintainer> |
637 |
+ <upstream> |
638 |
+ <remote-id type="sourceforge">conradcrf</remote-id> |
639 |
+ </upstream> |
640 |
</pkgmetadata> |
641 |
|
642 |
diff --git a/sci-biology/cramtools/metadata.xml b/sci-biology/cramtools/metadata.xml |
643 |
index f68a1b6fa..0a1821f4a 100644 |
644 |
--- a/sci-biology/cramtools/metadata.xml |
645 |
+++ b/sci-biology/cramtools/metadata.xml |
646 |
@@ -1,4 +1,4 @@ |
647 |
-<?xml version="1.0" encoding="UTF-8"?> |
648 |
+<?xml version='1.0' encoding='UTF-8'?> |
649 |
<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> |
650 |
<pkgmetadata> |
651 |
<maintainer type="person"> |
652 |
@@ -9,4 +9,7 @@ |
653 |
<email>sci-biology@g.o</email> |
654 |
<name>Gentoo Biology Project</name> |
655 |
</maintainer> |
656 |
+ <upstream> |
657 |
+ <remote-id type="github">enasequence/cramtools</remote-id> |
658 |
+ </upstream> |
659 |
</pkgmetadata> |
660 |
|
661 |
diff --git a/sci-biology/cross_genome/metadata.xml b/sci-biology/cross_genome/metadata.xml |
662 |
index f68a1b6fa..18786886b 100644 |
663 |
--- a/sci-biology/cross_genome/metadata.xml |
664 |
+++ b/sci-biology/cross_genome/metadata.xml |
665 |
@@ -1,4 +1,4 @@ |
666 |
-<?xml version="1.0" encoding="UTF-8"?> |
667 |
+<?xml version='1.0' encoding='UTF-8'?> |
668 |
<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> |
669 |
<pkgmetadata> |
670 |
<maintainer type="person"> |
671 |
@@ -9,4 +9,7 @@ |
672 |
<email>sci-biology@g.o</email> |
673 |
<name>Gentoo Biology Project</name> |
674 |
</maintainer> |
675 |
+ <upstream> |
676 |
+ <remote-id type="sourceforge">phusion2</remote-id> |
677 |
+ </upstream> |
678 |
</pkgmetadata> |
679 |
|
680 |
diff --git a/sci-biology/cutadapt/metadata.xml b/sci-biology/cutadapt/metadata.xml |
681 |
index dde730ca4..d432ff9a4 100644 |
682 |
--- a/sci-biology/cutadapt/metadata.xml |
683 |
+++ b/sci-biology/cutadapt/metadata.xml |
684 |
@@ -1,4 +1,4 @@ |
685 |
-<?xml version="1.0" encoding="UTF-8"?> |
686 |
+<?xml version='1.0' encoding='UTF-8'?> |
687 |
<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> |
688 |
<pkgmetadata> |
689 |
<maintainer type="person"> |
690 |
@@ -11,5 +11,6 @@ |
691 |
</maintainer> |
692 |
<upstream> |
693 |
<remote-id type="pypi">cutadapt</remote-id> |
694 |
+ <remote-id type="github">marcelm/cutadapt</remote-id> |
695 |
</upstream> |
696 |
</pkgmetadata> |
697 |
|
698 |
diff --git a/sci-biology/deeptools/metadata.xml b/sci-biology/deeptools/metadata.xml |
699 |
index f68a1b6fa..ae7de7d62 100644 |
700 |
--- a/sci-biology/deeptools/metadata.xml |
701 |
+++ b/sci-biology/deeptools/metadata.xml |
702 |
@@ -1,4 +1,4 @@ |
703 |
-<?xml version="1.0" encoding="UTF-8"?> |
704 |
+<?xml version='1.0' encoding='UTF-8'?> |
705 |
<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> |
706 |
<pkgmetadata> |
707 |
<maintainer type="person"> |
708 |
@@ -9,4 +9,7 @@ |
709 |
<email>sci-biology@g.o</email> |
710 |
<name>Gentoo Biology Project</name> |
711 |
</maintainer> |
712 |
+ <upstream> |
713 |
+ <remote-id type="github">fidelram/deepTools</remote-id> |
714 |
+ </upstream> |
715 |
</pkgmetadata> |
716 |
|
717 |
diff --git a/sci-biology/ensembl-tools/metadata.xml b/sci-biology/ensembl-tools/metadata.xml |
718 |
index f68a1b6fa..2457da65b 100644 |
719 |
--- a/sci-biology/ensembl-tools/metadata.xml |
720 |
+++ b/sci-biology/ensembl-tools/metadata.xml |
721 |
@@ -1,4 +1,4 @@ |
722 |
-<?xml version="1.0" encoding="UTF-8"?> |
723 |
+<?xml version='1.0' encoding='UTF-8'?> |
724 |
<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> |
725 |
<pkgmetadata> |
726 |
<maintainer type="person"> |
727 |
@@ -9,4 +9,7 @@ |
728 |
<email>sci-biology@g.o</email> |
729 |
<name>Gentoo Biology Project</name> |
730 |
</maintainer> |
731 |
+ <upstream> |
732 |
+ <remote-id type="github">Ensembl/ensembl-tools</remote-id> |
733 |
+ </upstream> |
734 |
</pkgmetadata> |
735 |
|
736 |
diff --git a/sci-biology/fgap-bin/metadata.xml b/sci-biology/fgap-bin/metadata.xml |
737 |
index f68a1b6fa..59e8a4413 100644 |
738 |
--- a/sci-biology/fgap-bin/metadata.xml |
739 |
+++ b/sci-biology/fgap-bin/metadata.xml |
740 |
@@ -1,4 +1,4 @@ |
741 |
-<?xml version="1.0" encoding="UTF-8"?> |
742 |
+<?xml version='1.0' encoding='UTF-8'?> |
743 |
<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> |
744 |
<pkgmetadata> |
745 |
<maintainer type="person"> |
746 |
@@ -9,4 +9,7 @@ |
747 |
<email>sci-biology@g.o</email> |
748 |
<name>Gentoo Biology Project</name> |
749 |
</maintainer> |
750 |
+ <upstream> |
751 |
+ <remote-id type="sourceforge">fgap</remote-id> |
752 |
+ </upstream> |
753 |
</pkgmetadata> |
754 |
|
755 |
diff --git a/sci-biology/fgap/metadata.xml b/sci-biology/fgap/metadata.xml |
756 |
index f68a1b6fa..59e8a4413 100644 |
757 |
--- a/sci-biology/fgap/metadata.xml |
758 |
+++ b/sci-biology/fgap/metadata.xml |
759 |
@@ -1,4 +1,4 @@ |
760 |
-<?xml version="1.0" encoding="UTF-8"?> |
761 |
+<?xml version='1.0' encoding='UTF-8'?> |
762 |
<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> |
763 |
<pkgmetadata> |
764 |
<maintainer type="person"> |
765 |
@@ -9,4 +9,7 @@ |
766 |
<email>sci-biology@g.o</email> |
767 |
<name>Gentoo Biology Project</name> |
768 |
</maintainer> |
769 |
+ <upstream> |
770 |
+ <remote-id type="sourceforge">fgap</remote-id> |
771 |
+ </upstream> |
772 |
</pkgmetadata> |
773 |
|
774 |
diff --git a/sci-biology/flexbar/metadata.xml b/sci-biology/flexbar/metadata.xml |
775 |
index ce8e58909..6bf81a0d4 100644 |
776 |
--- a/sci-biology/flexbar/metadata.xml |
777 |
+++ b/sci-biology/flexbar/metadata.xml |
778 |
@@ -1,4 +1,4 @@ |
779 |
-<?xml version="1.0" encoding="UTF-8"?> |
780 |
+<?xml version='1.0' encoding='UTF-8'?> |
781 |
<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> |
782 |
<pkgmetadata> |
783 |
<maintainer type="person"> |
784 |
@@ -11,5 +11,6 @@ |
785 |
</maintainer> |
786 |
<upstream> |
787 |
<remote-id type="sourceforge">flexbar</remote-id> |
788 |
+ <remote-id type="github">seqan/flexbar</remote-id> |
789 |
</upstream> |
790 |
</pkgmetadata> |
791 |
|
792 |
diff --git a/sci-biology/gemini/metadata.xml b/sci-biology/gemini/metadata.xml |
793 |
index f68a1b6fa..745bce5e5 100644 |
794 |
--- a/sci-biology/gemini/metadata.xml |
795 |
+++ b/sci-biology/gemini/metadata.xml |
796 |
@@ -1,4 +1,4 @@ |
797 |
-<?xml version="1.0" encoding="UTF-8"?> |
798 |
+<?xml version='1.0' encoding='UTF-8'?> |
799 |
<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> |
800 |
<pkgmetadata> |
801 |
<maintainer type="person"> |
802 |
@@ -9,4 +9,7 @@ |
803 |
<email>sci-biology@g.o</email> |
804 |
<name>Gentoo Biology Project</name> |
805 |
</maintainer> |
806 |
+ <upstream> |
807 |
+ <remote-id type="github">arq5x/gemini</remote-id> |
808 |
+ </upstream> |
809 |
</pkgmetadata> |
810 |
|
811 |
diff --git a/sci-biology/grabix/metadata.xml b/sci-biology/grabix/metadata.xml |
812 |
index f68a1b6fa..5ad9ab32c 100644 |
813 |
--- a/sci-biology/grabix/metadata.xml |
814 |
+++ b/sci-biology/grabix/metadata.xml |
815 |
@@ -1,4 +1,4 @@ |
816 |
-<?xml version="1.0" encoding="UTF-8"?> |
817 |
+<?xml version='1.0' encoding='UTF-8'?> |
818 |
<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> |
819 |
<pkgmetadata> |
820 |
<maintainer type="person"> |
821 |
@@ -9,4 +9,7 @@ |
822 |
<email>sci-biology@g.o</email> |
823 |
<name>Gentoo Biology Project</name> |
824 |
</maintainer> |
825 |
+ <upstream> |
826 |
+ <remote-id type="github">arq5x/grabix</remote-id> |
827 |
+ </upstream> |
828 |
</pkgmetadata> |
829 |
|
830 |
diff --git a/sci-biology/grass/metadata.xml b/sci-biology/grass/metadata.xml |
831 |
index 1699e58b2..8563b702d 100644 |
832 |
--- a/sci-biology/grass/metadata.xml |
833 |
+++ b/sci-biology/grass/metadata.xml |
834 |
@@ -1,12 +1,15 @@ |
835 |
-<?xml version="1.0" encoding="UTF-8"?> |
836 |
+<?xml version='1.0' encoding='UTF-8'?> |
837 |
<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> |
838 |
<pkgmetadata> |
839 |
<maintainer type="person"> |
840 |
<email>mmokrejs@×××××××××××××××.cz</email> |
841 |
<name>Martin Mokrejs</name> |
842 |
</maintainer> |
843 |
-<maintainer type="project"> |
844 |
+ <maintainer type="project"> |
845 |
<email>sci-biology@g.o</email> |
846 |
<name>Gentoo Biology Project</name> |
847 |
</maintainer> |
848 |
+ <upstream> |
849 |
+ <remote-id type="github">AlexeyG/GRASS</remote-id> |
850 |
+ </upstream> |
851 |
</pkgmetadata> |
852 |
|
853 |
diff --git a/sci-biology/hisat2/metadata.xml b/sci-biology/hisat2/metadata.xml |
854 |
index f68a1b6fa..b28711aa3 100644 |
855 |
--- a/sci-biology/hisat2/metadata.xml |
856 |
+++ b/sci-biology/hisat2/metadata.xml |
857 |
@@ -1,4 +1,4 @@ |
858 |
-<?xml version="1.0" encoding="UTF-8"?> |
859 |
+<?xml version='1.0' encoding='UTF-8'?> |
860 |
<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> |
861 |
<pkgmetadata> |
862 |
<maintainer type="person"> |
863 |
@@ -9,4 +9,7 @@ |
864 |
<email>sci-biology@g.o</email> |
865 |
<name>Gentoo Biology Project</name> |
866 |
</maintainer> |
867 |
+ <upstream> |
868 |
+ <remote-id type="github">infphilo/hisat2</remote-id> |
869 |
+ </upstream> |
870 |
</pkgmetadata> |
871 |
|
872 |
diff --git a/sci-biology/hts-python/metadata.xml b/sci-biology/hts-python/metadata.xml |
873 |
index f68a1b6fa..39221baa1 100644 |
874 |
--- a/sci-biology/hts-python/metadata.xml |
875 |
+++ b/sci-biology/hts-python/metadata.xml |
876 |
@@ -1,4 +1,4 @@ |
877 |
-<?xml version="1.0" encoding="UTF-8"?> |
878 |
+<?xml version='1.0' encoding='UTF-8'?> |
879 |
<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> |
880 |
<pkgmetadata> |
881 |
<maintainer type="person"> |
882 |
@@ -9,4 +9,7 @@ |
883 |
<email>sci-biology@g.o</email> |
884 |
<name>Gentoo Biology Project</name> |
885 |
</maintainer> |
886 |
+ <upstream> |
887 |
+ <remote-id type="github">brentp/hts-python</remote-id> |
888 |
+ </upstream> |
889 |
</pkgmetadata> |
890 |
|
891 |
diff --git a/sci-biology/jannovar-bin/metadata.xml b/sci-biology/jannovar-bin/metadata.xml |
892 |
index 1699e58b2..faceb6e46 100644 |
893 |
--- a/sci-biology/jannovar-bin/metadata.xml |
894 |
+++ b/sci-biology/jannovar-bin/metadata.xml |
895 |
@@ -1,12 +1,15 @@ |
896 |
-<?xml version="1.0" encoding="UTF-8"?> |
897 |
+<?xml version='1.0' encoding='UTF-8'?> |
898 |
<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> |
899 |
<pkgmetadata> |
900 |
<maintainer type="person"> |
901 |
<email>mmokrejs@×××××××××××××××.cz</email> |
902 |
<name>Martin Mokrejs</name> |
903 |
</maintainer> |
904 |
-<maintainer type="project"> |
905 |
+ <maintainer type="project"> |
906 |
<email>sci-biology@g.o</email> |
907 |
<name>Gentoo Biology Project</name> |
908 |
</maintainer> |
909 |
+ <upstream> |
910 |
+ <remote-id type="github">charite/jannovar</remote-id> |
911 |
+ </upstream> |
912 |
</pkgmetadata> |
913 |
|
914 |
diff --git a/sci-biology/jannovar/metadata.xml b/sci-biology/jannovar/metadata.xml |
915 |
index f68a1b6fa..faceb6e46 100644 |
916 |
--- a/sci-biology/jannovar/metadata.xml |
917 |
+++ b/sci-biology/jannovar/metadata.xml |
918 |
@@ -1,4 +1,4 @@ |
919 |
-<?xml version="1.0" encoding="UTF-8"?> |
920 |
+<?xml version='1.0' encoding='UTF-8'?> |
921 |
<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> |
922 |
<pkgmetadata> |
923 |
<maintainer type="person"> |
924 |
@@ -9,4 +9,7 @@ |
925 |
<email>sci-biology@g.o</email> |
926 |
<name>Gentoo Biology Project</name> |
927 |
</maintainer> |
928 |
+ <upstream> |
929 |
+ <remote-id type="github">charite/jannovar</remote-id> |
930 |
+ </upstream> |
931 |
</pkgmetadata> |
932 |
|
933 |
diff --git a/sci-biology/jtreeview-bin/metadata.xml b/sci-biology/jtreeview-bin/metadata.xml |
934 |
index f68a1b6fa..40552f721 100644 |
935 |
--- a/sci-biology/jtreeview-bin/metadata.xml |
936 |
+++ b/sci-biology/jtreeview-bin/metadata.xml |
937 |
@@ -1,4 +1,4 @@ |
938 |
-<?xml version="1.0" encoding="UTF-8"?> |
939 |
+<?xml version='1.0' encoding='UTF-8'?> |
940 |
<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> |
941 |
<pkgmetadata> |
942 |
<maintainer type="person"> |
943 |
@@ -9,4 +9,7 @@ |
944 |
<email>sci-biology@g.o</email> |
945 |
<name>Gentoo Biology Project</name> |
946 |
</maintainer> |
947 |
+ <upstream> |
948 |
+ <remote-id type="sourceforge">jtreeview</remote-id> |
949 |
+ </upstream> |
950 |
</pkgmetadata> |
951 |
|
952 |
diff --git a/sci-biology/jtreeview/metadata.xml b/sci-biology/jtreeview/metadata.xml |
953 |
index 3b98c8e27..a7083bff9 100644 |
954 |
--- a/sci-biology/jtreeview/metadata.xml |
955 |
+++ b/sci-biology/jtreeview/metadata.xml |
956 |
@@ -1,4 +1,4 @@ |
957 |
-<?xml version="1.0" encoding="UTF-8"?> |
958 |
+<?xml version='1.0' encoding='UTF-8'?> |
959 |
<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> |
960 |
<pkgmetadata> |
961 |
<maintainer type="person"> |
962 |
@@ -11,5 +11,6 @@ |
963 |
</maintainer> |
964 |
<upstream> |
965 |
<remote-id type="sourceforge">jtreeview</remote-id> |
966 |
+ <remote-id type="bitbucket">TreeView3Dev/treeview3</remote-id> |
967 |
</upstream> |
968 |
</pkgmetadata> |
969 |
|
970 |
diff --git a/sci-biology/karect/metadata.xml b/sci-biology/karect/metadata.xml |
971 |
index f68a1b6fa..0ac12d618 100644 |
972 |
--- a/sci-biology/karect/metadata.xml |
973 |
+++ b/sci-biology/karect/metadata.xml |
974 |
@@ -1,4 +1,4 @@ |
975 |
-<?xml version="1.0" encoding="UTF-8"?> |
976 |
+<?xml version='1.0' encoding='UTF-8'?> |
977 |
<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> |
978 |
<pkgmetadata> |
979 |
<maintainer type="person"> |
980 |
@@ -9,4 +9,7 @@ |
981 |
<email>sci-biology@g.o</email> |
982 |
<name>Gentoo Biology Project</name> |
983 |
</maintainer> |
984 |
+ <upstream> |
985 |
+ <remote-id type="github">aminallam/karect</remote-id> |
986 |
+ </upstream> |
987 |
</pkgmetadata> |
988 |
|
989 |
diff --git a/sci-biology/kat/metadata.xml b/sci-biology/kat/metadata.xml |
990 |
index f68a1b6fa..5561548a6 100644 |
991 |
--- a/sci-biology/kat/metadata.xml |
992 |
+++ b/sci-biology/kat/metadata.xml |
993 |
@@ -1,4 +1,4 @@ |
994 |
-<?xml version="1.0" encoding="UTF-8"?> |
995 |
+<?xml version='1.0' encoding='UTF-8'?> |
996 |
<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> |
997 |
<pkgmetadata> |
998 |
<maintainer type="person"> |
999 |
@@ -9,4 +9,7 @@ |
1000 |
<email>sci-biology@g.o</email> |
1001 |
<name>Gentoo Biology Project</name> |
1002 |
</maintainer> |
1003 |
+ <upstream> |
1004 |
+ <remote-id type="github">TGAC/KAT</remote-id> |
1005 |
+ </upstream> |
1006 |
</pkgmetadata> |
1007 |
|
1008 |
diff --git a/sci-biology/libBigWig/metadata.xml b/sci-biology/libBigWig/metadata.xml |
1009 |
index f68a1b6fa..dafe9d1fd 100644 |
1010 |
--- a/sci-biology/libBigWig/metadata.xml |
1011 |
+++ b/sci-biology/libBigWig/metadata.xml |
1012 |
@@ -1,4 +1,4 @@ |
1013 |
-<?xml version="1.0" encoding="UTF-8"?> |
1014 |
+<?xml version='1.0' encoding='UTF-8'?> |
1015 |
<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> |
1016 |
<pkgmetadata> |
1017 |
<maintainer type="person"> |
1018 |
@@ -9,4 +9,7 @@ |
1019 |
<email>sci-biology@g.o</email> |
1020 |
<name>Gentoo Biology Project</name> |
1021 |
</maintainer> |
1022 |
+ <upstream> |
1023 |
+ <remote-id type="github">dpryan79/libBigWig</remote-id> |
1024 |
+ </upstream> |
1025 |
</pkgmetadata> |
1026 |
|
1027 |
diff --git a/sci-biology/lumpy-sv/metadata.xml b/sci-biology/lumpy-sv/metadata.xml |
1028 |
index f68a1b6fa..27a0e1f28 100644 |
1029 |
--- a/sci-biology/lumpy-sv/metadata.xml |
1030 |
+++ b/sci-biology/lumpy-sv/metadata.xml |
1031 |
@@ -1,4 +1,4 @@ |
1032 |
-<?xml version="1.0" encoding="UTF-8"?> |
1033 |
+<?xml version='1.0' encoding='UTF-8'?> |
1034 |
<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> |
1035 |
<pkgmetadata> |
1036 |
<maintainer type="person"> |
1037 |
@@ -9,4 +9,7 @@ |
1038 |
<email>sci-biology@g.o</email> |
1039 |
<name>Gentoo Biology Project</name> |
1040 |
</maintainer> |
1041 |
+ <upstream> |
1042 |
+ <remote-id type="github">arq5x/lumpy-sv</remote-id> |
1043 |
+ </upstream> |
1044 |
</pkgmetadata> |
1045 |
|
1046 |
diff --git a/sci-biology/megahit/metadata.xml b/sci-biology/megahit/metadata.xml |
1047 |
index f68a1b6fa..deaf720d8 100644 |
1048 |
--- a/sci-biology/megahit/metadata.xml |
1049 |
+++ b/sci-biology/megahit/metadata.xml |
1050 |
@@ -1,4 +1,4 @@ |
1051 |
-<?xml version="1.0" encoding="UTF-8"?> |
1052 |
+<?xml version='1.0' encoding='UTF-8'?> |
1053 |
<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> |
1054 |
<pkgmetadata> |
1055 |
<maintainer type="person"> |
1056 |
@@ -9,4 +9,7 @@ |
1057 |
<email>sci-biology@g.o</email> |
1058 |
<name>Gentoo Biology Project</name> |
1059 |
</maintainer> |
1060 |
+ <upstream> |
1061 |
+ <remote-id type="github">voutcn/megahit</remote-id> |
1062 |
+ </upstream> |
1063 |
</pkgmetadata> |
1064 |
|
1065 |
diff --git a/sci-biology/mothur/metadata.xml b/sci-biology/mothur/metadata.xml |
1066 |
index 959160fe4..9afdf8282 100644 |
1067 |
--- a/sci-biology/mothur/metadata.xml |
1068 |
+++ b/sci-biology/mothur/metadata.xml |
1069 |
@@ -1,8 +1,11 @@ |
1070 |
-<?xml version="1.0" encoding="UTF-8"?> |
1071 |
+<?xml version='1.0' encoding='UTF-8'?> |
1072 |
<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> |
1073 |
<pkgmetadata> |
1074 |
<maintainer type="project"> |
1075 |
<email>sci-biology@g.o</email> |
1076 |
<name>Gentoo Biology Project</name> |
1077 |
</maintainer> |
1078 |
+ <upstream> |
1079 |
+ <remote-id type="github">mothur/mothur</remote-id> |
1080 |
+ </upstream> |
1081 |
</pkgmetadata> |
1082 |
|
1083 |
diff --git a/sci-biology/nilearn/metadata.xml b/sci-biology/nilearn/metadata.xml |
1084 |
index 7fee88bbe..3954d1f57 100644 |
1085 |
--- a/sci-biology/nilearn/metadata.xml |
1086 |
+++ b/sci-biology/nilearn/metadata.xml |
1087 |
@@ -1,4 +1,4 @@ |
1088 |
-<?xml version="1.0" encoding="UTF-8"?> |
1089 |
+<?xml version='1.0' encoding='UTF-8'?> |
1090 |
<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> |
1091 |
<pkgmetadata> |
1092 |
<maintainer type="person"> |
1093 |
@@ -19,5 +19,6 @@ |
1094 |
</use> |
1095 |
<upstream> |
1096 |
<remote-id type="pypi">nilearn</remote-id> |
1097 |
+ <remote-id type="github">nilearn/nilearn</remote-id> |
1098 |
</upstream> |
1099 |
</pkgmetadata> |
1100 |
|
1101 |
diff --git a/sci-biology/nwalign/metadata.xml b/sci-biology/nwalign/metadata.xml |
1102 |
index 1699e58b2..d5c7b72f2 100644 |
1103 |
--- a/sci-biology/nwalign/metadata.xml |
1104 |
+++ b/sci-biology/nwalign/metadata.xml |
1105 |
@@ -1,12 +1,15 @@ |
1106 |
-<?xml version="1.0" encoding="UTF-8"?> |
1107 |
+<?xml version='1.0' encoding='UTF-8'?> |
1108 |
<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> |
1109 |
<pkgmetadata> |
1110 |
<maintainer type="person"> |
1111 |
<email>mmokrejs@×××××××××××××××.cz</email> |
1112 |
<name>Martin Mokrejs</name> |
1113 |
</maintainer> |
1114 |
-<maintainer type="project"> |
1115 |
+ <maintainer type="project"> |
1116 |
<email>sci-biology@g.o</email> |
1117 |
<name>Gentoo Biology Project</name> |
1118 |
</maintainer> |
1119 |
+ <upstream> |
1120 |
+ <remote-id type="pypi">nwalign</remote-id> |
1121 |
+ </upstream> |
1122 |
</pkgmetadata> |
1123 |
|
1124 |
diff --git a/sci-biology/nxtrim/metadata.xml b/sci-biology/nxtrim/metadata.xml |
1125 |
index f68a1b6fa..b4b118dab 100644 |
1126 |
--- a/sci-biology/nxtrim/metadata.xml |
1127 |
+++ b/sci-biology/nxtrim/metadata.xml |
1128 |
@@ -1,4 +1,4 @@ |
1129 |
-<?xml version="1.0" encoding="UTF-8"?> |
1130 |
+<?xml version='1.0' encoding='UTF-8'?> |
1131 |
<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> |
1132 |
<pkgmetadata> |
1133 |
<maintainer type="person"> |
1134 |
@@ -9,4 +9,7 @@ |
1135 |
<email>sci-biology@g.o</email> |
1136 |
<name>Gentoo Biology Project</name> |
1137 |
</maintainer> |
1138 |
+ <upstream> |
1139 |
+ <remote-id type="github">sequencing/NxTrim</remote-id> |
1140 |
+ </upstream> |
1141 |
</pkgmetadata> |
1142 |
|
1143 |
diff --git a/sci-biology/oncotator/metadata.xml b/sci-biology/oncotator/metadata.xml |
1144 |
index f68a1b6fa..4f2a2f45a 100644 |
1145 |
--- a/sci-biology/oncotator/metadata.xml |
1146 |
+++ b/sci-biology/oncotator/metadata.xml |
1147 |
@@ -1,4 +1,4 @@ |
1148 |
-<?xml version="1.0" encoding="UTF-8"?> |
1149 |
+<?xml version='1.0' encoding='UTF-8'?> |
1150 |
<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> |
1151 |
<pkgmetadata> |
1152 |
<maintainer type="person"> |
1153 |
@@ -9,4 +9,7 @@ |
1154 |
<email>sci-biology@g.o</email> |
1155 |
<name>Gentoo Biology Project</name> |
1156 |
</maintainer> |
1157 |
+ <upstream> |
1158 |
+ <remote-id type="github">broadinstitute/oncotator</remote-id> |
1159 |
+ </upstream> |
1160 |
</pkgmetadata> |
1161 |
|
1162 |
diff --git a/sci-biology/perga/metadata.xml b/sci-biology/perga/metadata.xml |
1163 |
index f68a1b6fa..be641f1a0 100644 |
1164 |
--- a/sci-biology/perga/metadata.xml |
1165 |
+++ b/sci-biology/perga/metadata.xml |
1166 |
@@ -1,4 +1,4 @@ |
1167 |
-<?xml version="1.0" encoding="UTF-8"?> |
1168 |
+<?xml version='1.0' encoding='UTF-8'?> |
1169 |
<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> |
1170 |
<pkgmetadata> |
1171 |
<maintainer type="person"> |
1172 |
@@ -9,4 +9,7 @@ |
1173 |
<email>sci-biology@g.o</email> |
1174 |
<name>Gentoo Biology Project</name> |
1175 |
</maintainer> |
1176 |
+ <upstream> |
1177 |
+ <remote-id type="github">hitbio/PERGA</remote-id> |
1178 |
+ </upstream> |
1179 |
</pkgmetadata> |
1180 |
|
1181 |
diff --git a/sci-biology/phusion2/metadata.xml b/sci-biology/phusion2/metadata.xml |
1182 |
index 1699e58b2..d0f646374 100644 |
1183 |
--- a/sci-biology/phusion2/metadata.xml |
1184 |
+++ b/sci-biology/phusion2/metadata.xml |
1185 |
@@ -1,12 +1,15 @@ |
1186 |
-<?xml version="1.0" encoding="UTF-8"?> |
1187 |
+<?xml version='1.0' encoding='UTF-8'?> |
1188 |
<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> |
1189 |
<pkgmetadata> |
1190 |
<maintainer type="person"> |
1191 |
<email>mmokrejs@×××××××××××××××.cz</email> |
1192 |
<name>Martin Mokrejs</name> |
1193 |
</maintainer> |
1194 |
-<maintainer type="project"> |
1195 |
+ <maintainer type="project"> |
1196 |
<email>sci-biology@g.o</email> |
1197 |
<name>Gentoo Biology Project</name> |
1198 |
</maintainer> |
1199 |
+ <upstream> |
1200 |
+ <remote-id type="sourceforge">downloads</remote-id> |
1201 |
+ </upstream> |
1202 |
</pkgmetadata> |
1203 |
|
1204 |
diff --git a/sci-biology/picard/metadata.xml b/sci-biology/picard/metadata.xml |
1205 |
index 513e8631c..4ec209225 100644 |
1206 |
--- a/sci-biology/picard/metadata.xml |
1207 |
+++ b/sci-biology/picard/metadata.xml |
1208 |
@@ -1,4 +1,4 @@ |
1209 |
-<?xml version="1.0" encoding="UTF-8"?> |
1210 |
+<?xml version='1.0' encoding='UTF-8'?> |
1211 |
<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> |
1212 |
<pkgmetadata> |
1213 |
<maintainer type="person"> |
1214 |
@@ -11,5 +11,6 @@ |
1215 |
</maintainer> |
1216 |
<upstream> |
1217 |
<remote-id type="sourceforge">picard</remote-id> |
1218 |
+ <remote-id type="github">broadinstitute/picard</remote-id> |
1219 |
</upstream> |
1220 |
</pkgmetadata> |
1221 |
|
1222 |
diff --git a/sci-biology/prinseq-lite/metadata.xml b/sci-biology/prinseq-lite/metadata.xml |
1223 |
index f68a1b6fa..d5c8298fe 100644 |
1224 |
--- a/sci-biology/prinseq-lite/metadata.xml |
1225 |
+++ b/sci-biology/prinseq-lite/metadata.xml |
1226 |
@@ -1,4 +1,4 @@ |
1227 |
-<?xml version="1.0" encoding="UTF-8"?> |
1228 |
+<?xml version='1.0' encoding='UTF-8'?> |
1229 |
<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> |
1230 |
<pkgmetadata> |
1231 |
<maintainer type="person"> |
1232 |
@@ -9,4 +9,7 @@ |
1233 |
<email>sci-biology@g.o</email> |
1234 |
<name>Gentoo Biology Project</name> |
1235 |
</maintainer> |
1236 |
+ <upstream> |
1237 |
+ <remote-id type="sourceforge">prinseq</remote-id> |
1238 |
+ </upstream> |
1239 |
</pkgmetadata> |
1240 |
|
1241 |
diff --git a/sci-biology/psychopy/metadata.xml b/sci-biology/psychopy/metadata.xml |
1242 |
index c74323f81..e5d49f5cb 100644 |
1243 |
--- a/sci-biology/psychopy/metadata.xml |
1244 |
+++ b/sci-biology/psychopy/metadata.xml |
1245 |
@@ -1,4 +1,4 @@ |
1246 |
-<?xml version="1.0" encoding="UTF-8"?> |
1247 |
+<?xml version='1.0' encoding='UTF-8'?> |
1248 |
<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> |
1249 |
<pkgmetadata> |
1250 |
<maintainer type="person"> |
1251 |
@@ -7,5 +7,6 @@ |
1252 |
</maintainer> |
1253 |
<upstream> |
1254 |
<remote-id type="sourceforge">psychpy</remote-id> |
1255 |
+ <remote-id type="github">psychopy/psychopy</remote-id> |
1256 |
</upstream> |
1257 |
</pkgmetadata> |
1258 |
|
1259 |
diff --git a/sci-biology/pybrain/metadata.xml b/sci-biology/pybrain/metadata.xml |
1260 |
index 8425c0d53..0ac4c31dd 100644 |
1261 |
--- a/sci-biology/pybrain/metadata.xml |
1262 |
+++ b/sci-biology/pybrain/metadata.xml |
1263 |
@@ -1,8 +1,11 @@ |
1264 |
-<?xml version="1.0" encoding="UTF-8"?> |
1265 |
+<?xml version='1.0' encoding='UTF-8'?> |
1266 |
<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> |
1267 |
<pkgmetadata> |
1268 |
<maintainer type="project"> |
1269 |
<email>sci@g.o</email> |
1270 |
<name>Gentoo Science Project</name> |
1271 |
</maintainer> |
1272 |
+ <upstream> |
1273 |
+ <remote-id type="github">pybrain/pybrain</remote-id> |
1274 |
+ </upstream> |
1275 |
</pkgmetadata> |
1276 |
|
1277 |
diff --git a/sci-biology/pysamstats/metadata.xml b/sci-biology/pysamstats/metadata.xml |
1278 |
index f68a1b6fa..1bd906efe 100644 |
1279 |
--- a/sci-biology/pysamstats/metadata.xml |
1280 |
+++ b/sci-biology/pysamstats/metadata.xml |
1281 |
@@ -1,4 +1,4 @@ |
1282 |
-<?xml version="1.0" encoding="UTF-8"?> |
1283 |
+<?xml version='1.0' encoding='UTF-8'?> |
1284 |
<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> |
1285 |
<pkgmetadata> |
1286 |
<maintainer type="person"> |
1287 |
@@ -9,4 +9,8 @@ |
1288 |
<email>sci-biology@g.o</email> |
1289 |
<name>Gentoo Biology Project</name> |
1290 |
</maintainer> |
1291 |
+ <upstream> |
1292 |
+ <remote-id type="github">alimanfoo/pysamstats</remote-id> |
1293 |
+ <remote-id type="pypi">pysamstats</remote-id> |
1294 |
+ </upstream> |
1295 |
</pkgmetadata> |
1296 |
|
1297 |
diff --git a/sci-biology/ruffus/metadata.xml b/sci-biology/ruffus/metadata.xml |
1298 |
index 1699e58b2..5541360c7 100644 |
1299 |
--- a/sci-biology/ruffus/metadata.xml |
1300 |
+++ b/sci-biology/ruffus/metadata.xml |
1301 |
@@ -1,12 +1,15 @@ |
1302 |
-<?xml version="1.0" encoding="UTF-8"?> |
1303 |
+<?xml version='1.0' encoding='UTF-8'?> |
1304 |
<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> |
1305 |
<pkgmetadata> |
1306 |
<maintainer type="person"> |
1307 |
<email>mmokrejs@×××××××××××××××.cz</email> |
1308 |
<name>Martin Mokrejs</name> |
1309 |
</maintainer> |
1310 |
-<maintainer type="project"> |
1311 |
+ <maintainer type="project"> |
1312 |
<email>sci-biology@g.o</email> |
1313 |
<name>Gentoo Biology Project</name> |
1314 |
</maintainer> |
1315 |
+ <upstream> |
1316 |
+ <remote-id type="pypi">ruffus</remote-id> |
1317 |
+ </upstream> |
1318 |
</pkgmetadata> |
1319 |
|
1320 |
diff --git a/sci-biology/sambamba/metadata.xml b/sci-biology/sambamba/metadata.xml |
1321 |
index f68a1b6fa..ab03f4219 100644 |
1322 |
--- a/sci-biology/sambamba/metadata.xml |
1323 |
+++ b/sci-biology/sambamba/metadata.xml |
1324 |
@@ -1,4 +1,4 @@ |
1325 |
-<?xml version="1.0" encoding="UTF-8"?> |
1326 |
+<?xml version='1.0' encoding='UTF-8'?> |
1327 |
<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> |
1328 |
<pkgmetadata> |
1329 |
<maintainer type="person"> |
1330 |
@@ -9,4 +9,7 @@ |
1331 |
<email>sci-biology@g.o</email> |
1332 |
<name>Gentoo Biology Project</name> |
1333 |
</maintainer> |
1334 |
+ <upstream> |
1335 |
+ <remote-id type="github">lomereiter/sambamba</remote-id> |
1336 |
+ </upstream> |
1337 |
</pkgmetadata> |
1338 |
|
1339 |
diff --git a/sci-biology/scbi_blast/metadata.xml b/sci-biology/scbi_blast/metadata.xml |
1340 |
index 5c826014b..dd1623955 100644 |
1341 |
--- a/sci-biology/scbi_blast/metadata.xml |
1342 |
+++ b/sci-biology/scbi_blast/metadata.xml |
1343 |
@@ -1,4 +1,4 @@ |
1344 |
-<?xml version="1.0" encoding="UTF-8"?> |
1345 |
+<?xml version='1.0' encoding='UTF-8'?> |
1346 |
<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> |
1347 |
<pkgmetadata> |
1348 |
<maintainer type="person"> |
1349 |
@@ -11,5 +11,6 @@ |
1350 |
</maintainer> |
1351 |
<upstream> |
1352 |
<remote-id type="github">trinityrnaseq/trinityrnaseq</remote-id> |
1353 |
+ <remote-id type="rubygems">scbi_blast</remote-id> |
1354 |
</upstream> |
1355 |
</pkgmetadata> |
1356 |
|
1357 |
diff --git a/sci-biology/scbi_fasta/metadata.xml b/sci-biology/scbi_fasta/metadata.xml |
1358 |
index 5c826014b..f8f3e47a2 100644 |
1359 |
--- a/sci-biology/scbi_fasta/metadata.xml |
1360 |
+++ b/sci-biology/scbi_fasta/metadata.xml |
1361 |
@@ -1,4 +1,4 @@ |
1362 |
-<?xml version="1.0" encoding="UTF-8"?> |
1363 |
+<?xml version='1.0' encoding='UTF-8'?> |
1364 |
<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> |
1365 |
<pkgmetadata> |
1366 |
<maintainer type="person"> |
1367 |
@@ -11,5 +11,6 @@ |
1368 |
</maintainer> |
1369 |
<upstream> |
1370 |
<remote-id type="github">trinityrnaseq/trinityrnaseq</remote-id> |
1371 |
+ <remote-id type="rubygems">scbi_fasta</remote-id> |
1372 |
</upstream> |
1373 |
</pkgmetadata> |
1374 |
|
1375 |
diff --git a/sci-biology/scbi_fastq/metadata.xml b/sci-biology/scbi_fastq/metadata.xml |
1376 |
index f68a1b6fa..69f445f42 100644 |
1377 |
--- a/sci-biology/scbi_fastq/metadata.xml |
1378 |
+++ b/sci-biology/scbi_fastq/metadata.xml |
1379 |
@@ -1,4 +1,4 @@ |
1380 |
-<?xml version="1.0" encoding="UTF-8"?> |
1381 |
+<?xml version='1.0' encoding='UTF-8'?> |
1382 |
<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> |
1383 |
<pkgmetadata> |
1384 |
<maintainer type="person"> |
1385 |
@@ -9,4 +9,7 @@ |
1386 |
<email>sci-biology@g.o</email> |
1387 |
<name>Gentoo Biology Project</name> |
1388 |
</maintainer> |
1389 |
+ <upstream> |
1390 |
+ <remote-id type="rubygems">scbi_fastq</remote-id> |
1391 |
+ </upstream> |
1392 |
</pkgmetadata> |
1393 |
|
1394 |
diff --git a/sci-biology/scbi_mapreduce/metadata.xml b/sci-biology/scbi_mapreduce/metadata.xml |
1395 |
index 5c826014b..a39eed183 100644 |
1396 |
--- a/sci-biology/scbi_mapreduce/metadata.xml |
1397 |
+++ b/sci-biology/scbi_mapreduce/metadata.xml |
1398 |
@@ -1,4 +1,4 @@ |
1399 |
-<?xml version="1.0" encoding="UTF-8"?> |
1400 |
+<?xml version='1.0' encoding='UTF-8'?> |
1401 |
<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> |
1402 |
<pkgmetadata> |
1403 |
<maintainer type="person"> |
1404 |
@@ -11,5 +11,6 @@ |
1405 |
</maintainer> |
1406 |
<upstream> |
1407 |
<remote-id type="github">trinityrnaseq/trinityrnaseq</remote-id> |
1408 |
+ <remote-id type="rubygems">scbi_mapreduce</remote-id> |
1409 |
</upstream> |
1410 |
</pkgmetadata> |
1411 |
|
1412 |
diff --git a/sci-biology/scbi_plot/metadata.xml b/sci-biology/scbi_plot/metadata.xml |
1413 |
index 5c826014b..5e2713549 100644 |
1414 |
--- a/sci-biology/scbi_plot/metadata.xml |
1415 |
+++ b/sci-biology/scbi_plot/metadata.xml |
1416 |
@@ -1,4 +1,4 @@ |
1417 |
-<?xml version="1.0" encoding="UTF-8"?> |
1418 |
+<?xml version='1.0' encoding='UTF-8'?> |
1419 |
<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> |
1420 |
<pkgmetadata> |
1421 |
<maintainer type="person"> |
1422 |
@@ -11,5 +11,6 @@ |
1423 |
</maintainer> |
1424 |
<upstream> |
1425 |
<remote-id type="github">trinityrnaseq/trinityrnaseq</remote-id> |
1426 |
+ <remote-id type="rubygems">scbi_plot</remote-id> |
1427 |
</upstream> |
1428 |
</pkgmetadata> |
1429 |
|
1430 |
diff --git a/sci-biology/scbi_zcat/metadata.xml b/sci-biology/scbi_zcat/metadata.xml |
1431 |
index f68a1b6fa..a55e8612a 100644 |
1432 |
--- a/sci-biology/scbi_zcat/metadata.xml |
1433 |
+++ b/sci-biology/scbi_zcat/metadata.xml |
1434 |
@@ -1,4 +1,4 @@ |
1435 |
-<?xml version="1.0" encoding="UTF-8"?> |
1436 |
+<?xml version='1.0' encoding='UTF-8'?> |
1437 |
<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> |
1438 |
<pkgmetadata> |
1439 |
<maintainer type="person"> |
1440 |
@@ -9,4 +9,7 @@ |
1441 |
<email>sci-biology@g.o</email> |
1442 |
<name>Gentoo Biology Project</name> |
1443 |
</maintainer> |
1444 |
+ <upstream> |
1445 |
+ <remote-id type="rubygems">scbi_zcat</remote-id> |
1446 |
+ </upstream> |
1447 |
</pkgmetadata> |
1448 |
|
1449 |
diff --git a/sci-biology/smalt/metadata.xml b/sci-biology/smalt/metadata.xml |
1450 |
index 1699e58b2..4b2ca765e 100644 |
1451 |
--- a/sci-biology/smalt/metadata.xml |
1452 |
+++ b/sci-biology/smalt/metadata.xml |
1453 |
@@ -1,12 +1,15 @@ |
1454 |
-<?xml version="1.0" encoding="UTF-8"?> |
1455 |
+<?xml version='1.0' encoding='UTF-8'?> |
1456 |
<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> |
1457 |
<pkgmetadata> |
1458 |
<maintainer type="person"> |
1459 |
<email>mmokrejs@×××××××××××××××.cz</email> |
1460 |
<name>Martin Mokrejs</name> |
1461 |
</maintainer> |
1462 |
-<maintainer type="project"> |
1463 |
+ <maintainer type="project"> |
1464 |
<email>sci-biology@g.o</email> |
1465 |
<name>Gentoo Biology Project</name> |
1466 |
</maintainer> |
1467 |
+ <upstream> |
1468 |
+ <remote-id type="sourceforge">smalt</remote-id> |
1469 |
+ </upstream> |
1470 |
</pkgmetadata> |
1471 |
|
1472 |
diff --git a/sci-biology/snpomatic/metadata.xml b/sci-biology/snpomatic/metadata.xml |
1473 |
index f68a1b6fa..47ff2f6ab 100644 |
1474 |
--- a/sci-biology/snpomatic/metadata.xml |
1475 |
+++ b/sci-biology/snpomatic/metadata.xml |
1476 |
@@ -1,4 +1,4 @@ |
1477 |
-<?xml version="1.0" encoding="UTF-8"?> |
1478 |
+<?xml version='1.0' encoding='UTF-8'?> |
1479 |
<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> |
1480 |
<pkgmetadata> |
1481 |
<maintainer type="person"> |
1482 |
@@ -9,4 +9,7 @@ |
1483 |
<email>sci-biology@g.o</email> |
1484 |
<name>Gentoo Biology Project</name> |
1485 |
</maintainer> |
1486 |
+ <upstream> |
1487 |
+ <remote-id type="github">magnusmanske/snpomatic</remote-id> |
1488 |
+ </upstream> |
1489 |
</pkgmetadata> |
1490 |
|
1491 |
diff --git a/sci-biology/somatic-sniper/metadata.xml b/sci-biology/somatic-sniper/metadata.xml |
1492 |
index f68a1b6fa..d931eaf33 100644 |
1493 |
--- a/sci-biology/somatic-sniper/metadata.xml |
1494 |
+++ b/sci-biology/somatic-sniper/metadata.xml |
1495 |
@@ -1,4 +1,4 @@ |
1496 |
-<?xml version="1.0" encoding="UTF-8"?> |
1497 |
+<?xml version='1.0' encoding='UTF-8'?> |
1498 |
<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> |
1499 |
<pkgmetadata> |
1500 |
<maintainer type="person"> |
1501 |
@@ -9,4 +9,7 @@ |
1502 |
<email>sci-biology@g.o</email> |
1503 |
<name>Gentoo Biology Project</name> |
1504 |
</maintainer> |
1505 |
+ <upstream> |
1506 |
+ <remote-id type="github">genome/somatic-sniper</remote-id> |
1507 |
+ </upstream> |
1508 |
</pkgmetadata> |
1509 |
|
1510 |
diff --git a/sci-biology/staden_doc/metadata.xml b/sci-biology/staden_doc/metadata.xml |
1511 |
index f68a1b6fa..73d16b005 100644 |
1512 |
--- a/sci-biology/staden_doc/metadata.xml |
1513 |
+++ b/sci-biology/staden_doc/metadata.xml |
1514 |
@@ -1,4 +1,4 @@ |
1515 |
-<?xml version="1.0" encoding="UTF-8"?> |
1516 |
+<?xml version='1.0' encoding='UTF-8'?> |
1517 |
<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> |
1518 |
<pkgmetadata> |
1519 |
<maintainer type="person"> |
1520 |
@@ -9,4 +9,7 @@ |
1521 |
<email>sci-biology@g.o</email> |
1522 |
<name>Gentoo Biology Project</name> |
1523 |
</maintainer> |
1524 |
+ <upstream> |
1525 |
+ <remote-id type="sourceforge">staden</remote-id> |
1526 |
+ </upstream> |
1527 |
</pkgmetadata> |
1528 |
|
1529 |
diff --git a/sci-biology/stringtie/metadata.xml b/sci-biology/stringtie/metadata.xml |
1530 |
index f68a1b6fa..b909ea058 100644 |
1531 |
--- a/sci-biology/stringtie/metadata.xml |
1532 |
+++ b/sci-biology/stringtie/metadata.xml |
1533 |
@@ -1,4 +1,4 @@ |
1534 |
-<?xml version="1.0" encoding="UTF-8"?> |
1535 |
+<?xml version='1.0' encoding='UTF-8'?> |
1536 |
<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> |
1537 |
<pkgmetadata> |
1538 |
<maintainer type="person"> |
1539 |
@@ -9,4 +9,7 @@ |
1540 |
<email>sci-biology@g.o</email> |
1541 |
<name>Gentoo Biology Project</name> |
1542 |
</maintainer> |
1543 |
+ <upstream> |
1544 |
+ <remote-id type="github">gpertea/stringtie</remote-id> |
1545 |
+ </upstream> |
1546 |
</pkgmetadata> |
1547 |
|
1548 |
diff --git a/sci-biology/vcflib/metadata.xml b/sci-biology/vcflib/metadata.xml |
1549 |
index f68a1b6fa..ce295b942 100644 |
1550 |
--- a/sci-biology/vcflib/metadata.xml |
1551 |
+++ b/sci-biology/vcflib/metadata.xml |
1552 |
@@ -1,4 +1,4 @@ |
1553 |
-<?xml version="1.0" encoding="UTF-8"?> |
1554 |
+<?xml version='1.0' encoding='UTF-8'?> |
1555 |
<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> |
1556 |
<pkgmetadata> |
1557 |
<maintainer type="person"> |
1558 |
@@ -9,4 +9,7 @@ |
1559 |
<email>sci-biology@g.o</email> |
1560 |
<name>Gentoo Biology Project</name> |
1561 |
</maintainer> |
1562 |
+ <upstream> |
1563 |
+ <remote-id type="github">vcflib/vcflib</remote-id> |
1564 |
+ </upstream> |
1565 |
</pkgmetadata> |
1566 |
|
1567 |
diff --git a/sci-biology/vcftools/metadata.xml b/sci-biology/vcftools/metadata.xml |
1568 |
index 77f6f92e0..6c22d1920 100644 |
1569 |
--- a/sci-biology/vcftools/metadata.xml |
1570 |
+++ b/sci-biology/vcftools/metadata.xml |
1571 |
@@ -1,4 +1,4 @@ |
1572 |
-<?xml version="1.0" encoding="UTF-8"?> |
1573 |
+<?xml version='1.0' encoding='UTF-8'?> |
1574 |
<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> |
1575 |
<pkgmetadata> |
1576 |
<maintainer type="project"> |
1577 |
@@ -7,5 +7,6 @@ |
1578 |
</maintainer> |
1579 |
<upstream> |
1580 |
<remote-id type="sourceforge">vcftools</remote-id> |
1581 |
+ <remote-id type="github">vcftools/vcftools</remote-id> |
1582 |
</upstream> |
1583 |
</pkgmetadata> |
1584 |
|
1585 |
diff --git a/sci-biology/verifyBamID/metadata.xml b/sci-biology/verifyBamID/metadata.xml |
1586 |
index f68a1b6fa..41b69bc9c 100644 |
1587 |
--- a/sci-biology/verifyBamID/metadata.xml |
1588 |
+++ b/sci-biology/verifyBamID/metadata.xml |
1589 |
@@ -1,4 +1,4 @@ |
1590 |
-<?xml version="1.0" encoding="UTF-8"?> |
1591 |
+<?xml version='1.0' encoding='UTF-8'?> |
1592 |
<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> |
1593 |
<pkgmetadata> |
1594 |
<maintainer type="person"> |
1595 |
@@ -9,4 +9,7 @@ |
1596 |
<email>sci-biology@g.o</email> |
1597 |
<name>Gentoo Biology Project</name> |
1598 |
</maintainer> |
1599 |
+ <upstream> |
1600 |
+ <remote-id type="github">statgen/libStatGen</remote-id> |
1601 |
+ </upstream> |
1602 |
</pkgmetadata> |
1603 |
|
1604 |
diff --git a/sci-biology/vt/metadata.xml b/sci-biology/vt/metadata.xml |
1605 |
index f68a1b6fa..ab18754bf 100644 |
1606 |
--- a/sci-biology/vt/metadata.xml |
1607 |
+++ b/sci-biology/vt/metadata.xml |
1608 |
@@ -1,4 +1,4 @@ |
1609 |
-<?xml version="1.0" encoding="UTF-8"?> |
1610 |
+<?xml version='1.0' encoding='UTF-8'?> |
1611 |
<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> |
1612 |
<pkgmetadata> |
1613 |
<maintainer type="person"> |
1614 |
@@ -9,4 +9,7 @@ |
1615 |
<email>sci-biology@g.o</email> |
1616 |
<name>Gentoo Biology Project</name> |
1617 |
</maintainer> |
1618 |
+ <upstream> |
1619 |
+ <remote-id type="github">atks/vt</remote-id> |
1620 |
+ </upstream> |
1621 |
</pkgmetadata> |
1622 |
|
1623 |
diff --git a/sci-biology/yaha/metadata.xml b/sci-biology/yaha/metadata.xml |
1624 |
index f68a1b6fa..4d610cc7e 100644 |
1625 |
--- a/sci-biology/yaha/metadata.xml |
1626 |
+++ b/sci-biology/yaha/metadata.xml |
1627 |
@@ -1,4 +1,4 @@ |
1628 |
-<?xml version="1.0" encoding="UTF-8"?> |
1629 |
+<?xml version='1.0' encoding='UTF-8'?> |
1630 |
<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> |
1631 |
<pkgmetadata> |
1632 |
<maintainer type="person"> |
1633 |
@@ -9,4 +9,7 @@ |
1634 |
<email>sci-biology@g.o</email> |
1635 |
<name>Gentoo Biology Project</name> |
1636 |
</maintainer> |
1637 |
+ <upstream> |
1638 |
+ <remote-id type="github">GregoryFaust/yaha</remote-id> |
1639 |
+ </upstream> |
1640 |
</pkgmetadata> |
1641 |
|
1642 |
diff --git a/sci-chemistry/wxmacmolplt/metadata.xml b/sci-chemistry/wxmacmolplt/metadata.xml |
1643 |
index 19df98469..fa784e844 100644 |
1644 |
--- a/sci-chemistry/wxmacmolplt/metadata.xml |
1645 |
+++ b/sci-chemistry/wxmacmolplt/metadata.xml |
1646 |
@@ -1,4 +1,4 @@ |
1647 |
-<?xml version="1.0" encoding="UTF-8"?> |
1648 |
+<?xml version='1.0' encoding='UTF-8'?> |
1649 |
<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> |
1650 |
<pkgmetadata> |
1651 |
<maintainer type="project"> |
1652 |
@@ -17,4 +17,7 @@ |
1653 |
Add support for flash movie generation using <pkg>media-libs/ming</pkg> |
1654 |
</flag> |
1655 |
</use> |
1656 |
+ <upstream> |
1657 |
+ <remote-id type="github">brettbode/wxmacmolplt</remote-id> |
1658 |
+ </upstream> |
1659 |
</pkgmetadata> |
1660 |
|
1661 |
diff --git a/sci-libs/arrayfire/metadata.xml b/sci-libs/arrayfire/metadata.xml |
1662 |
index 9903267a4..994d7bb3d 100644 |
1663 |
--- a/sci-libs/arrayfire/metadata.xml |
1664 |
+++ b/sci-libs/arrayfire/metadata.xml |
1665 |
@@ -1,4 +1,4 @@ |
1666 |
-<?xml version="1.0" encoding="UTF-8"?> |
1667 |
+<?xml version='1.0' encoding='UTF-8'?> |
1668 |
<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> |
1669 |
<pkgmetadata> |
1670 |
<maintainer type="person"> |
1671 |
@@ -36,4 +36,7 @@ |
1672 |
Build Backend-Independent API. |
1673 |
</flag> |
1674 |
</use> |
1675 |
+ <upstream> |
1676 |
+ <remote-id type="github">google/googletest</remote-id> |
1677 |
+ </upstream> |
1678 |
</pkgmetadata> |
1679 |
|
1680 |
diff --git a/sci-libs/bloom/metadata.xml b/sci-libs/bloom/metadata.xml |
1681 |
index 1699e58b2..ea4817fa3 100644 |
1682 |
--- a/sci-libs/bloom/metadata.xml |
1683 |
+++ b/sci-libs/bloom/metadata.xml |
1684 |
@@ -1,12 +1,15 @@ |
1685 |
-<?xml version="1.0" encoding="UTF-8"?> |
1686 |
+<?xml version='1.0' encoding='UTF-8'?> |
1687 |
<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> |
1688 |
<pkgmetadata> |
1689 |
<maintainer type="person"> |
1690 |
<email>mmokrejs@×××××××××××××××.cz</email> |
1691 |
<name>Martin Mokrejs</name> |
1692 |
</maintainer> |
1693 |
-<maintainer type="project"> |
1694 |
+ <maintainer type="project"> |
1695 |
<email>sci-biology@g.o</email> |
1696 |
<name>Gentoo Biology Project</name> |
1697 |
</maintainer> |
1698 |
+ <upstream> |
1699 |
+ <remote-id type="github">arashpartow/bloom</remote-id> |
1700 |
+ </upstream> |
1701 |
</pkgmetadata> |
1702 |
|
1703 |
diff --git a/sci-libs/dtk/metadata.xml b/sci-libs/dtk/metadata.xml |
1704 |
index ec9fa9d47..92ff8e86b 100644 |
1705 |
--- a/sci-libs/dtk/metadata.xml |
1706 |
+++ b/sci-libs/dtk/metadata.xml |
1707 |
@@ -9,4 +9,7 @@ |
1708 |
<email>sci@g.o</email> |
1709 |
<name>Gentoo Science Project</name> |
1710 |
</maintainer> |
1711 |
+ <upstream> |
1712 |
+ <remote-id type="github">d-tk/dtk</remote-id> |
1713 |
+ </upstream> |
1714 |
</pkgmetadata> |
1715 |
|
1716 |
diff --git a/sci-libs/lib2bit/metadata.xml b/sci-libs/lib2bit/metadata.xml |
1717 |
index f68a1b6fa..1f37ac0f9 100644 |
1718 |
--- a/sci-libs/lib2bit/metadata.xml |
1719 |
+++ b/sci-libs/lib2bit/metadata.xml |
1720 |
@@ -1,4 +1,4 @@ |
1721 |
-<?xml version="1.0" encoding="UTF-8"?> |
1722 |
+<?xml version='1.0' encoding='UTF-8'?> |
1723 |
<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> |
1724 |
<pkgmetadata> |
1725 |
<maintainer type="person"> |
1726 |
@@ -9,4 +9,7 @@ |
1727 |
<email>sci-biology@g.o</email> |
1728 |
<name>Gentoo Biology Project</name> |
1729 |
</maintainer> |
1730 |
+ <upstream> |
1731 |
+ <remote-id type="github">dpryan79/lib2bit</remote-id> |
1732 |
+ </upstream> |
1733 |
</pkgmetadata> |
1734 |
|
1735 |
diff --git a/sci-libs/libStatGen/metadata.xml b/sci-libs/libStatGen/metadata.xml |
1736 |
index f68a1b6fa..41b69bc9c 100644 |
1737 |
--- a/sci-libs/libStatGen/metadata.xml |
1738 |
+++ b/sci-libs/libStatGen/metadata.xml |
1739 |
@@ -1,4 +1,4 @@ |
1740 |
-<?xml version="1.0" encoding="UTF-8"?> |
1741 |
+<?xml version='1.0' encoding='UTF-8'?> |
1742 |
<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> |
1743 |
<pkgmetadata> |
1744 |
<maintainer type="person"> |
1745 |
@@ -9,4 +9,7 @@ |
1746 |
<email>sci-biology@g.o</email> |
1747 |
<name>Gentoo Biology Project</name> |
1748 |
</maintainer> |
1749 |
+ <upstream> |
1750 |
+ <remote-id type="github">statgen/libStatGen</remote-id> |
1751 |
+ </upstream> |
1752 |
</pkgmetadata> |
1753 |
|
1754 |
diff --git a/sci-libs/lmfit/metadata.xml b/sci-libs/lmfit/metadata.xml |
1755 |
index 8425c0d53..a4573ac05 100644 |
1756 |
--- a/sci-libs/lmfit/metadata.xml |
1757 |
+++ b/sci-libs/lmfit/metadata.xml |
1758 |
@@ -1,8 +1,11 @@ |
1759 |
-<?xml version="1.0" encoding="UTF-8"?> |
1760 |
+<?xml version='1.0' encoding='UTF-8'?> |
1761 |
<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> |
1762 |
<pkgmetadata> |
1763 |
<maintainer type="project"> |
1764 |
<email>sci@g.o</email> |
1765 |
<name>Gentoo Science Project</name> |
1766 |
</maintainer> |
1767 |
+ <upstream> |
1768 |
+ <remote-id type="sourceforge">lmfit</remote-id> |
1769 |
+ </upstream> |
1770 |
</pkgmetadata> |
1771 |
|
1772 |
diff --git a/sci-libs/nexus/metadata.xml b/sci-libs/nexus/metadata.xml |
1773 |
index 4ef50910d..901161d45 100644 |
1774 |
--- a/sci-libs/nexus/metadata.xml |
1775 |
+++ b/sci-libs/nexus/metadata.xml |
1776 |
@@ -1,4 +1,4 @@ |
1777 |
-<?xml version="1.0" encoding="UTF-8"?> |
1778 |
+<?xml version='1.0' encoding='UTF-8'?> |
1779 |
<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> |
1780 |
<pkgmetadata> |
1781 |
<maintainer type="person"> |
1782 |
@@ -23,4 +23,7 @@ |
1783 |
<flag name="java">Build the Java bindings</flag> |
1784 |
<flag name="utils">Build optional utility applications</flag> |
1785 |
</use> |
1786 |
+ <upstream> |
1787 |
+ <remote-id type="github">nexusformat/code</remote-id> |
1788 |
+ </upstream> |
1789 |
</pkgmetadata> |
1790 |
|
1791 |
diff --git a/sci-libs/nipype/metadata.xml b/sci-libs/nipype/metadata.xml |
1792 |
index c9064b1ae..8e5a54081 100644 |
1793 |
--- a/sci-libs/nipype/metadata.xml |
1794 |
+++ b/sci-libs/nipype/metadata.xml |
1795 |
@@ -1,4 +1,4 @@ |
1796 |
-<?xml version="1.0" encoding="UTF-8"?> |
1797 |
+<?xml version='1.0' encoding='UTF-8'?> |
1798 |
<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> |
1799 |
<pkgmetadata> |
1800 |
<maintainer type="person"> |
1801 |
@@ -23,5 +23,6 @@ |
1802 |
</longdescription> |
1803 |
<upstream> |
1804 |
<remote-id type="sourceforge">nipy</remote-id> |
1805 |
+ <remote-id type="github">nipy/nipype</remote-id> |
1806 |
</upstream> |
1807 |
</pkgmetadata> |
1808 |
|
1809 |
diff --git a/sci-libs/pmx/metadata.xml b/sci-libs/pmx/metadata.xml |
1810 |
index 988041704..cb2e5209a 100644 |
1811 |
--- a/sci-libs/pmx/metadata.xml |
1812 |
+++ b/sci-libs/pmx/metadata.xml |
1813 |
@@ -1,4 +1,4 @@ |
1814 |
-<?xml version="1.0" encoding="UTF-8"?> |
1815 |
+<?xml version='1.0' encoding='UTF-8'?> |
1816 |
<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> |
1817 |
<pkgmetadata> |
1818 |
<maintainer type="project"> |
1819 |
@@ -13,4 +13,7 @@ |
1820 |
functionalities, e.g. gromacs file parsers and scripts for setup and |
1821 |
analysis of free energy calculations. |
1822 |
</longdescription> |
1823 |
+ <upstream> |
1824 |
+ <remote-id type="github">dseeliger/pmx</remote-id> |
1825 |
+ </upstream> |
1826 |
</pkgmetadata> |
1827 |
|
1828 |
diff --git a/sci-libs/shtools/metadata.xml b/sci-libs/shtools/metadata.xml |
1829 |
index bacae8d93..518b8e2dd 100644 |
1830 |
--- a/sci-libs/shtools/metadata.xml |
1831 |
+++ b/sci-libs/shtools/metadata.xml |
1832 |
@@ -1,4 +1,4 @@ |
1833 |
-<?xml version="1.0" encoding="UTF-8"?> |
1834 |
+<?xml version='1.0' encoding='UTF-8'?> |
1835 |
<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> |
1836 |
<pkgmetadata> |
1837 |
<maintainer type="person"> |
1838 |
@@ -15,4 +15,7 @@ |
1839 |
reconstructions, rotations of data expressed in spherical |
1840 |
harmonics, and multitaper spectral analyses on the sphere. |
1841 |
</longdescription> |
1842 |
+ <upstream> |
1843 |
+ <remote-id type="github">SHTOOLS/SHTOOLS</remote-id> |
1844 |
+ </upstream> |
1845 |
</pkgmetadata> |
1846 |
|
1847 |
diff --git a/sci-mathematics/dolfin/metadata.xml b/sci-mathematics/dolfin/metadata.xml |
1848 |
index 70a8a021f..c45db3d3e 100644 |
1849 |
--- a/sci-mathematics/dolfin/metadata.xml |
1850 |
+++ b/sci-mathematics/dolfin/metadata.xml |
1851 |
@@ -1,4 +1,4 @@ |
1852 |
-<?xml version="1.0" encoding="UTF-8"?> |
1853 |
+<?xml version='1.0' encoding='UTF-8'?> |
1854 |
<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> |
1855 |
<pkgmetadata> |
1856 |
<maintainer type="project"> |
1857 |
@@ -7,19 +7,20 @@ |
1858 |
</maintainer> |
1859 |
<longdescription lang="en"> |
1860 |
DOLFIN is the C++/Python interface of FEniCS, providing a consistent PSE (Problem Solving Environment) for ordinary and partial differential equations. |
1861 |
-</longdescription> |
1862 |
+ </longdescription> |
1863 |
<use> |
1864 |
<flag name="cgal">Adds support for geometric algorithms with <pkg>sci-mathematics/cgal</pkg></flag> |
1865 |
<flag name="cholmod">Adds support for sparse Cholesky factorization with <pkg>sci-libs/cholmod</pkg></flag> |
1866 |
- <flag name="hdf5">Adds support for <pkg>sci-libs/hdf5</pkg></flag> |
1867 |
+ <flag name="hdf5">Adds support for <pkg>sci-libs/hdf5</pkg></flag> |
1868 |
<flag name="parmetis">Adds support for parallel graph partitioning with <pkg>sci-libs/parmetis</pkg></flag> |
1869 |
- <flag name="petsc">Adds support for numerical linear algebra toolkit <pkg>sci-mathematics/petsc</pkg></flag> |
1870 |
+ <flag name="petsc">Adds support for numerical linear algebra toolkit <pkg>sci-mathematics/petsc</pkg></flag> |
1871 |
<flag name="scotch">Adds support for graph partitioning with <pkg>sci-libs/scotch</pkg></flag> |
1872 |
- <flag name="trilinos">Adds support for numerical linear algebra toolkit <pkg>sci-libs/trilinos</pkg></flag> |
1873 |
+ <flag name="trilinos">Adds support for numerical linear algebra toolkit <pkg>sci-libs/trilinos</pkg></flag> |
1874 |
<flag name="umfpack">Adds support for sparse solving with <pkg>sci-libs/umfpack</pkg></flag> |
1875 |
<flag name="vtk">Adds support for the visualization toolkit <pkg>sci-libs/vtk</pkg></flag> |
1876 |
</use> |
1877 |
<upstream> |
1878 |
<remote-id type="launchpad">dolfin</remote-id> |
1879 |
+ <remote-id type="bitbucket">fenics-project/dolfin</remote-id> |
1880 |
</upstream> |
1881 |
</pkgmetadata> |
1882 |
|
1883 |
diff --git a/sci-mathematics/mathics/metadata.xml b/sci-mathematics/mathics/metadata.xml |
1884 |
index 9cb351fa7..d2e5a63b0 100644 |
1885 |
--- a/sci-mathematics/mathics/metadata.xml |
1886 |
+++ b/sci-mathematics/mathics/metadata.xml |
1887 |
@@ -1,4 +1,4 @@ |
1888 |
-<?xml version="1.0" encoding="UTF-8"?> |
1889 |
+<?xml version='1.0' encoding='UTF-8'?> |
1890 |
<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> |
1891 |
<pkgmetadata> |
1892 |
<maintainer type="project"> |
1893 |
@@ -18,4 +18,7 @@ |
1894 |
However, Mathics is in no way affiliated or supported by Wolfram. Mathics will probably never have the power to |
1895 |
compete with Mathematica® in industrial applications; yet, it might be an interesting alternative for educational purposes. |
1896 |
</longdescription> |
1897 |
+ <upstream> |
1898 |
+ <remote-id type="github">mathics/Mathics</remote-id> |
1899 |
+ </upstream> |
1900 |
</pkgmetadata> |
1901 |
|
1902 |
diff --git a/sci-mathematics/tisean/metadata.xml b/sci-mathematics/tisean/metadata.xml |
1903 |
index 3be7b5248..04bcf9b8c 100644 |
1904 |
--- a/sci-mathematics/tisean/metadata.xml |
1905 |
+++ b/sci-mathematics/tisean/metadata.xml |
1906 |
@@ -1,8 +1,11 @@ |
1907 |
-<?xml version="1.0" encoding="UTF-8"?> |
1908 |
+<?xml version='1.0' encoding='UTF-8'?> |
1909 |
<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> |
1910 |
<pkgmetadata> |
1911 |
<maintainer type="person"> |
1912 |
<email>jlec@g.o</email> |
1913 |
<name>Justin Lecher (jlec)</name> |
1914 |
</maintainer> |
1915 |
+ <upstream> |
1916 |
+ <remote-id type="github">heggus/Tisean</remote-id> |
1917 |
+ </upstream> |
1918 |
</pkgmetadata> |
1919 |
|
1920 |
diff --git a/sci-misc/mitlm/metadata.xml b/sci-misc/mitlm/metadata.xml |
1921 |
index 5e38f5236..05123bc6e 100644 |
1922 |
--- a/sci-misc/mitlm/metadata.xml |
1923 |
+++ b/sci-misc/mitlm/metadata.xml |
1924 |
@@ -1,4 +1,4 @@ |
1925 |
-<?xml version="1.0" encoding="UTF-8"?> |
1926 |
+<?xml version='1.0' encoding='UTF-8'?> |
1927 |
<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> |
1928 |
<pkgmetadata> |
1929 |
<maintainer type="person"> |
1930 |
@@ -9,6 +9,9 @@ |
1931 |
designed for the efficient estimation of statistical n-gram |
1932 |
language models involving iterative parameter estimation. |
1933 |
It achieves much of its efficiency through the use of a compact |
1934 |
- vector representation of n-grams. |
1935 |
+ vector representation of n-grams. |
1936 |
</longdescription> |
1937 |
+ <upstream> |
1938 |
+ <remote-id type="github">mitlm/mitlm</remote-id> |
1939 |
+ </upstream> |
1940 |
</pkgmetadata> |