add github remote-id when possible

Semi-automatically done with:
 https://gitlab.com/cJ/gentoo-bug-881037-github-reproducible-downloads
Closes: https://github.com/gentoo/sci/pull/1182

Signed-off-by: Andrew Ammerlaan <andrewammerlaan@gentoo.org>

31 files changed, 89 insertions, 0 deletions

diff --git a/sci-biology/BRAKER/metadata.xml b/sci-biology/BRAKER/metadata.xml
index 138cb7705..aa4766e73 100644
--- a/sci-biology/BRAKER/metadata.xml
+++ b/sci-biology/BRAKER/metadata.xml
@@ -9,4 +9,7 @@
 		<email>sci-biology@gentoo.org</email>
 		<name>Gentoo Biology Project</name>
 	</maintainer>
+	<upstream>
+		<remote-id type="github">Gaius-Augustus/BRAKER</remote-id>
+	</upstream>
 </pkgmetadata>
diff --git a/sci-biology/GAL/metadata.xml b/sci-biology/GAL/metadata.xml
index 138cb7705..480ba370b 100644
--- a/sci-biology/GAL/metadata.xml
+++ b/sci-biology/GAL/metadata.xml
@@ -9,4 +9,7 @@
 		<email>sci-biology@gentoo.org</email>
 		<name>Gentoo Biology Project</name>
 	</maintainer>
+	<upstream>
+		<remote-id type="github">The-Sequence-Ontology/GAL</remote-id>
+	</upstream>
 </pkgmetadata>
diff --git a/sci-biology/RAILS/metadata.xml b/sci-biology/RAILS/metadata.xml
index 138cb7705..a3f152e56 100644
--- a/sci-biology/RAILS/metadata.xml
+++ b/sci-biology/RAILS/metadata.xml
@@ -9,4 +9,7 @@
 		<email>sci-biology@gentoo.org</email>
 		<name>Gentoo Biology Project</name>
 	</maintainer>
+	<upstream>
+		<remote-id type="github">bcgsc/RAILS</remote-id>
+	</upstream>
 </pkgmetadata>
diff --git a/sci-biology/VelvetOptimiser/metadata.xml b/sci-biology/VelvetOptimiser/metadata.xml
index 138cb7705..cc34f33b5 100644
--- a/sci-biology/VelvetOptimiser/metadata.xml
+++ b/sci-biology/VelvetOptimiser/metadata.xml
@@ -9,4 +9,7 @@
 		<email>sci-biology@gentoo.org</email>
 		<name>Gentoo Biology Project</name>
 	</maintainer>
+	<upstream>
+		<remote-id type="github">tseemann/VelvetOptimiser</remote-id>
+	</upstream>
 </pkgmetadata>
diff --git a/sci-biology/afni/metadata.xml b/sci-biology/afni/metadata.xml
index acf637dca..cbb8a4299 100644
--- a/sci-biology/afni/metadata.xml
+++ b/sci-biology/afni/metadata.xml
@@ -13,4 +13,7 @@
 		Analysis of Functional NeuroImages (AFNI) is an open-source environment for processing and displaying 
 		functional MRI data—a technique for mapping human brain activity.
 	</longdescription>
+	<upstream>
+		<remote-id type="github">afni/afni</remote-id>
+	</upstream>
 </pkgmetadata>
diff --git a/sci-biology/angsd/metadata.xml b/sci-biology/angsd/metadata.xml
index 138cb7705..ed9e5b12d 100644
--- a/sci-biology/angsd/metadata.xml
+++ b/sci-biology/angsd/metadata.xml
@@ -9,4 +9,7 @@
 		<email>sci-biology@gentoo.org</email>
 		<name>Gentoo Biology Project</name>
 	</maintainer>
+	<upstream>
+		<remote-id type="github">ANGSD/angsd</remote-id>
+	</upstream>
 </pkgmetadata>
diff --git a/sci-biology/ants/metadata.xml b/sci-biology/ants/metadata.xml
index 9f969ddf9..e8372d21b 100644
--- a/sci-biology/ants/metadata.xml
+++ b/sci-biology/ants/metadata.xml
@@ -21,4 +21,7 @@
 	<use>
 		<flag name="vtk">Optional support for a number of surface enabled tools (via sci-libs/vtk).</flag>
 	</use>
+	<upstream>
+		<remote-id type="github">ANTsX/ANTs</remote-id>
+	</upstream>
 </pkgmetadata>
diff --git a/sci-biology/bamql/metadata.xml b/sci-biology/bamql/metadata.xml
index 138cb7705..927a160ba 100644
--- a/sci-biology/bamql/metadata.xml
+++ b/sci-biology/bamql/metadata.xml
@@ -9,4 +9,7 @@
 		<email>sci-biology@gentoo.org</email>
 		<name>Gentoo Biology Project</name>
 	</maintainer>
+	<upstream>
+		<remote-id type="github">BoutrosLaboratory/bamql</remote-id>
+	</upstream>
 </pkgmetadata>
diff --git a/sci-biology/barrnap/metadata.xml b/sci-biology/barrnap/metadata.xml
index 138cb7705..9183ef1ec 100644
--- a/sci-biology/barrnap/metadata.xml
+++ b/sci-biology/barrnap/metadata.xml
@@ -9,4 +9,7 @@
 		<email>sci-biology@gentoo.org</email>
 		<name>Gentoo Biology Project</name>
 	</maintainer>
+	<upstream>
+		<remote-id type="github">tseemann/barrnap</remote-id>
+	</upstream>
 </pkgmetadata>
diff --git a/sci-biology/bismark/metadata.xml b/sci-biology/bismark/metadata.xml
index 4c433a8ca..4ee13c559 100644
--- a/sci-biology/bismark/metadata.xml
+++ b/sci-biology/bismark/metadata.xml
@@ -20,4 +20,7 @@ and gapped alignments; (4) Alignment seed length, number of mismatches etc. are
 adjustable; (5) Output discriminates between cytosine methylation in CpG, CHG
 and CHH context.
 </longdescription>
+	<upstream>
+		<remote-id type="github">FelixKrueger/Bismark</remote-id>
+	</upstream>
 </pkgmetadata>
diff --git a/sci-biology/btl_bloomfilter/metadata.xml b/sci-biology/btl_bloomfilter/metadata.xml
index 138cb7705..1e02bb596 100644
--- a/sci-biology/btl_bloomfilter/metadata.xml
+++ b/sci-biology/btl_bloomfilter/metadata.xml
@@ -9,4 +9,7 @@
 		<email>sci-biology@gentoo.org</email>
 		<name>Gentoo Biology Project</name>
 	</maintainer>
+	<upstream>
+		<remote-id type="github">bcgsc/btl_bloomfilter</remote-id>
+	</upstream>
 </pkgmetadata>
diff --git a/sci-biology/bx-python/metadata.xml b/sci-biology/bx-python/metadata.xml
index 3e13342e3..80a22b44a 100644
--- a/sci-biology/bx-python/metadata.xml
+++ b/sci-biology/bx-python/metadata.xml
@@ -12,5 +12,6 @@
 	<upstream>
 		<remote-id type="bitbucket">james_taylor/bx-python</remote-id>
 		<remote-id type="pypi">bx-python</remote-id>
+		<remote-id type="github">bxlab/bx-python</remote-id>
 	</upstream>
 </pkgmetadata>
diff --git a/sci-biology/dcm2niix/metadata.xml b/sci-biology/dcm2niix/metadata.xml
index 9c9e19081..773e706a6 100644
--- a/sci-biology/dcm2niix/metadata.xml
+++ b/sci-biology/dcm2niix/metadata.xml
@@ -19,4 +19,7 @@
 		format to the NIfTI format. ICOM provides many ways to store/compress
 		image data, known as transfer syntaxes.
 	</longdescription>
+	<upstream>
+		<remote-id type="github">rordenlab/dcm2niix</remote-id>
+	</upstream>
 </pkgmetadata>
diff --git a/sci-biology/dcmstack/metadata.xml b/sci-biology/dcmstack/metadata.xml
index ae9640ffb..0272cf14e 100644
--- a/sci-biology/dcmstack/metadata.xml
+++ b/sci-biology/dcmstack/metadata.xml
@@ -5,4 +5,7 @@
 		<email>sci@gentoo.org</email>
 		<name>Gentoo Science Project</name>
 	</maintainer>
+	<upstream>
+		<remote-id type="github">moloney/dcmstack</remote-id>
+	</upstream>
 </pkgmetadata>
diff --git a/sci-biology/diamond/metadata.xml b/sci-biology/diamond/metadata.xml
index 138cb7705..ac7dfc24a 100644
--- a/sci-biology/diamond/metadata.xml
+++ b/sci-biology/diamond/metadata.xml
@@ -9,4 +9,7 @@
 		<email>sci-biology@gentoo.org</email>
 		<name>Gentoo Biology Project</name>
 	</maintainer>
+	<upstream>
+		<remote-id type="github">bbuchfink/diamond</remote-id>
+	</upstream>
 </pkgmetadata>
diff --git a/sci-biology/fastqc/metadata.xml b/sci-biology/fastqc/metadata.xml
index 7c86089a2..f13c6ccba 100644
--- a/sci-biology/fastqc/metadata.xml
+++ b/sci-biology/fastqc/metadata.xml
@@ -13,4 +13,7 @@
 		<email>sci-biology@gentoo.org</email>
 		<name>Gentoo Biology Project</name>
 	</maintainer>
+	<upstream>
+		<remote-id type="github">s-andrews/FastQC</remote-id>
+	</upstream>
 </pkgmetadata>
diff --git a/sci-biology/ffindex/metadata.xml b/sci-biology/ffindex/metadata.xml
index 138cb7705..a9577a9c3 100644
--- a/sci-biology/ffindex/metadata.xml
+++ b/sci-biology/ffindex/metadata.xml
@@ -9,4 +9,7 @@
 		<email>sci-biology@gentoo.org</email>
 		<name>Gentoo Biology Project</name>
 	</maintainer>
+	<upstream>
+		<remote-id type="github">ahcm/ffindex</remote-id>
+	</upstream>
 </pkgmetadata>
diff --git a/sci-biology/longstitch/metadata.xml b/sci-biology/longstitch/metadata.xml
index 138cb7705..b25087121 100644
--- a/sci-biology/longstitch/metadata.xml
+++ b/sci-biology/longstitch/metadata.xml
@@ -9,4 +9,7 @@
 		<email>sci-biology@gentoo.org</email>
 		<name>Gentoo Biology Project</name>
 	</maintainer>
+	<upstream>
+		<remote-id type="github">bcgsc/LongStitch</remote-id>
+	</upstream>
 </pkgmetadata>
diff --git a/sci-biology/mreps/metadata.xml b/sci-biology/mreps/metadata.xml
index 8417d1580..a60e8c1b5 100644
--- a/sci-biology/mreps/metadata.xml
+++ b/sci-biology/mreps/metadata.xml
@@ -5,4 +5,7 @@
 		<email>sci-biology@gentoo.org</email>
 		<name>Gentoo Biology Project</name>
 	</maintainer>
+	<upstream>
+		<remote-id type="github">gregorykucherov/mreps</remote-id>
+	</upstream>
 </pkgmetadata>
diff --git a/sci-biology/nextclip/metadata.xml b/sci-biology/nextclip/metadata.xml
index 138cb7705..b0874714e 100644
--- a/sci-biology/nextclip/metadata.xml
+++ b/sci-biology/nextclip/metadata.xml
@@ -9,4 +9,7 @@
 		<email>sci-biology@gentoo.org</email>
 		<name>Gentoo Biology Project</name>
 	</maintainer>
+	<upstream>
+		<remote-id type="github">richardmleggett/nextclip</remote-id>
+	</upstream>
 </pkgmetadata>
diff --git a/sci-biology/ngs/metadata.xml b/sci-biology/ngs/metadata.xml
index 138cb7705..f165e6cbc 100644
--- a/sci-biology/ngs/metadata.xml
+++ b/sci-biology/ngs/metadata.xml
@@ -9,4 +9,7 @@
 		<email>sci-biology@gentoo.org</email>
 		<name>Gentoo Biology Project</name>
 	</maintainer>
+	<upstream>
+		<remote-id type="github">ncbi/ngs</remote-id>
+	</upstream>
 </pkgmetadata>
diff --git a/sci-biology/ntCard/metadata.xml b/sci-biology/ntCard/metadata.xml
index 138cb7705..fb03df79c 100644
--- a/sci-biology/ntCard/metadata.xml
+++ b/sci-biology/ntCard/metadata.xml
@@ -9,4 +9,7 @@
 		<email>sci-biology@gentoo.org</email>
 		<name>Gentoo Biology Project</name>
 	</maintainer>
+	<upstream>
+		<remote-id type="github">bcgsc/ntCard</remote-id>
+	</upstream>
 </pkgmetadata>
diff --git a/sci-biology/prokka/metadata.xml b/sci-biology/prokka/metadata.xml
index 138cb7705..9272f0d9c 100644
--- a/sci-biology/prokka/metadata.xml
+++ b/sci-biology/prokka/metadata.xml
@@ -9,4 +9,7 @@
 		<email>sci-biology@gentoo.org</email>
 		<name>Gentoo Biology Project</name>
 	</maintainer>
+	<upstream>
+		<remote-id type="github">tseemann/prokka</remote-id>
+	</upstream>
 </pkgmetadata>
diff --git a/sci-biology/pyfaidx/metadata.xml b/sci-biology/pyfaidx/metadata.xml
index fd0f24633..47cc39d79 100644
--- a/sci-biology/pyfaidx/metadata.xml
+++ b/sci-biology/pyfaidx/metadata.xml
@@ -11,5 +11,6 @@
 	</maintainer>
 	<upstream>
 		<remote-id type="pypi">pyfaidx</remote-id>
+		<remote-id type="github">mdshw5/pyfaidx</remote-id>
 	</upstream>
 </pkgmetadata>
diff --git a/sci-biology/quicktree/metadata.xml b/sci-biology/quicktree/metadata.xml
index 8417d1580..e3ce321ed 100644
--- a/sci-biology/quicktree/metadata.xml
+++ b/sci-biology/quicktree/metadata.xml
@@ -5,4 +5,7 @@
 		<email>sci-biology@gentoo.org</email>
 		<name>Gentoo Biology Project</name>
 	</maintainer>
+	<upstream>
+		<remote-id type="github">khowe/quicktree</remote-id>
+	</upstream>
 </pkgmetadata>
diff --git a/sci-biology/rtg-tools/metadata.xml b/sci-biology/rtg-tools/metadata.xml
index 138cb7705..026053b60 100644
--- a/sci-biology/rtg-tools/metadata.xml
+++ b/sci-biology/rtg-tools/metadata.xml
@@ -9,4 +9,7 @@
 		<email>sci-biology@gentoo.org</email>
 		<name>Gentoo Biology Project</name>
 	</maintainer>
+	<upstream>
+		<remote-id type="github">RealTimeGenomics/rtg-tools</remote-id>
+	</upstream>
 </pkgmetadata>
diff --git a/sci-biology/seqtk/metadata.xml b/sci-biology/seqtk/metadata.xml
index 138cb7705..a2d91d1c4 100644
--- a/sci-biology/seqtk/metadata.xml
+++ b/sci-biology/seqtk/metadata.xml
@@ -9,4 +9,7 @@
 		<email>sci-biology@gentoo.org</email>
 		<name>Gentoo Biology Project</name>
 	</maintainer>
+	<upstream>
+		<remote-id type="github">lh3/seqtk</remote-id>
+	</upstream>
 </pkgmetadata>
diff --git a/sci-biology/spm/metadata.xml b/sci-biology/spm/metadata.xml
index ae9640ffb..d888971d1 100644
--- a/sci-biology/spm/metadata.xml
+++ b/sci-biology/spm/metadata.xml
@@ -5,4 +5,7 @@
 		<email>sci@gentoo.org</email>
 		<name>Gentoo Science Project</name>
 	</maintainer>
+	<upstream>
+		<remote-id type="github">spm/spm12</remote-id>
+	</upstream>
 </pkgmetadata>
diff --git a/sci-biology/trans-abyss/metadata.xml b/sci-biology/trans-abyss/metadata.xml
index 138cb7705..079fb5aae 100644
--- a/sci-biology/trans-abyss/metadata.xml
+++ b/sci-biology/trans-abyss/metadata.xml
@@ -9,4 +9,7 @@
 		<email>sci-biology@gentoo.org</email>
 		<name>Gentoo Biology Project</name>
 	</maintainer>
+	<upstream>
+		<remote-id type="github">bcgsc/transabyss</remote-id>
+	</upstream>
 </pkgmetadata>
diff --git a/sci-biology/trim_galore/metadata.xml b/sci-biology/trim_galore/metadata.xml
index 138cb7705..ac0e44aa7 100644
--- a/sci-biology/trim_galore/metadata.xml
+++ b/sci-biology/trim_galore/metadata.xml
@@ -9,4 +9,7 @@
 		<email>sci-biology@gentoo.org</email>
 		<name>Gentoo Biology Project</name>
 	</maintainer>
+	<upstream>
+		<remote-id type="github">FelixKrueger/TrimGalore</remote-id>
+	</upstream>
 </pkgmetadata>
diff --git a/sci-biology/ugene/metadata.xml b/sci-biology/ugene/metadata.xml
index a3daeebd2..36e8936e5 100644
--- a/sci-biology/ugene/metadata.xml
+++ b/sci-biology/ugene/metadata.xml
@@ -9,4 +9,7 @@
 		<email>sci@gentoo.org</email>
 		<name>Gentoo Science Project</name>
 	</maintainer>
+	<upstream>
+		<remote-id type="github">ugeneunipro/ugene</remote-id>
+	</upstream>
 </pkgmetadata>