17 files changed, 66 insertions, 17 deletions
diff --git a/sci-biology/Atlas2/metadata.xml b/sci-biology/Atlas2/metadata.xml
index 2bc893037..b6165f3f2 100644
--- a/sci-biology/Atlas2/metadata.xml
+++ b/sci-biology/Atlas2/metadata.xml
@@ -1,4 +1,4 @@
-<?xml version="1.0" encoding="UTF-8"?>
+<?xml version='1.0' encoding='UTF-8'?>
 <!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd">
 <pkgmetadata>
   <herd>sci-biology</herd>
@@ -6,4 +6,7 @@
     <email>mmokrejs@fold.natur.cuni.cz</email>
     <name>Martin Mokrejs</name>
   </maintainer>
+  <upstream>
+    <remote-id type="sourceforge">downloads</remote-id>
+  </upstream>
 </pkgmetadata>
diff --git a/sci-biology/IMAGE/metadata.xml b/sci-biology/IMAGE/metadata.xml
index 2bc893037..66a27d451 100644
--- a/sci-biology/IMAGE/metadata.xml
+++ b/sci-biology/IMAGE/metadata.xml
@@ -1,4 +1,4 @@
-<?xml version="1.0" encoding="UTF-8"?>
+<?xml version='1.0' encoding='UTF-8'?>
 <!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd">
 <pkgmetadata>
   <herd>sci-biology</herd>
@@ -6,4 +6,7 @@
     <email>mmokrejs@fold.natur.cuni.cz</email>
     <name>Martin Mokrejs</name>
   </maintainer>
+  <upstream>
+    <remote-id type="sourceforge">image2</remote-id>
+  </upstream>
 </pkgmetadata>
diff --git a/sci-biology/NGSTools/metadata.xml b/sci-biology/NGSTools/metadata.xml
index 2bc893037..2df61f4c4 100644
--- a/sci-biology/NGSTools/metadata.xml
+++ b/sci-biology/NGSTools/metadata.xml
@@ -1,4 +1,4 @@
-<?xml version="1.0" encoding="UTF-8"?>
+<?xml version='1.0' encoding='UTF-8'?>
 <!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd">
 <pkgmetadata>
   <herd>sci-biology</herd>
@@ -6,4 +6,7 @@
     <email>mmokrejs@fold.natur.cuni.cz</email>
     <name>Martin Mokrejs</name>
   </maintainer>
+  <upstream>
+    <remote-id type="sourceforge">ngsep</remote-id>
+  </upstream>
 </pkgmetadata>
diff --git a/sci-biology/OBO-Edit/metadata.xml b/sci-biology/OBO-Edit/metadata.xml
index 07b525505..c0878bce6 100644
--- a/sci-biology/OBO-Edit/metadata.xml
+++ b/sci-biology/OBO-Edit/metadata.xml
@@ -1,4 +1,4 @@
-<?xml version="1.0" encoding="UTF-8"?>
+<?xml version='1.0' encoding='UTF-8'?>
 <!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd">
 <pkgmetadata>
 	<herd>sci-biology</herd>
@@ -6,4 +6,7 @@
 		<email>mmokrejs@fold.natur.cuni.cz</email>
 		<name>Martin Mokrejs</name>
 	</maintainer>
+	<upstream>
+		<remote-id type="sourceforge">geneontology</remote-id>
+	</upstream>
 </pkgmetadata>
diff --git a/sci-biology/STAR/metadata.xml b/sci-biology/STAR/metadata.xml
index 2bc893037..c91b750b3 100644
--- a/sci-biology/STAR/metadata.xml
+++ b/sci-biology/STAR/metadata.xml
@@ -1,4 +1,4 @@
-<?xml version="1.0" encoding="UTF-8"?>
+<?xml version='1.0' encoding='UTF-8'?>
 <!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd">
 <pkgmetadata>
   <herd>sci-biology</herd>
@@ -6,4 +6,7 @@
     <email>mmokrejs@fold.natur.cuni.cz</email>
     <name>Martin Mokrejs</name>
   </maintainer>
+  <upstream>
+    <remote-id type="github">alexdobin/STAR</remote-id>
+  </upstream>
 </pkgmetadata>
diff --git a/sci-biology/conifer/metadata.xml b/sci-biology/conifer/metadata.xml
index 2bc893037..b6165f3f2 100644
--- a/sci-biology/conifer/metadata.xml
+++ b/sci-biology/conifer/metadata.xml
@@ -1,4 +1,4 @@
-<?xml version="1.0" encoding="UTF-8"?>
+<?xml version='1.0' encoding='UTF-8'?>
 <!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd">
 <pkgmetadata>
   <herd>sci-biology</herd>
@@ -6,4 +6,7 @@
     <email>mmokrejs@fold.natur.cuni.cz</email>
     <name>Martin Mokrejs</name>
   </maintainer>
+  <upstream>
+    <remote-id type="sourceforge">downloads</remote-id>
+  </upstream>
 </pkgmetadata>
diff --git a/sci-biology/flexbar/metadata.xml b/sci-biology/flexbar/metadata.xml
index 07b525505..2b8f8cd55 100644
--- a/sci-biology/flexbar/metadata.xml
+++ b/sci-biology/flexbar/metadata.xml
@@ -1,4 +1,4 @@
-<?xml version="1.0" encoding="UTF-8"?>
+<?xml version='1.0' encoding='UTF-8'?>
 <!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd">
 <pkgmetadata>
 	<herd>sci-biology</herd>
@@ -6,4 +6,7 @@
 		<email>mmokrejs@fold.natur.cuni.cz</email>
 		<name>Martin Mokrejs</name>
 	</maintainer>
+	<upstream>
+		<remote-id type="sourceforge">flexbar</remote-id>
+	</upstream>
 </pkgmetadata>
diff --git a/sci-biology/gap2caf/metadata.xml b/sci-biology/gap2caf/metadata.xml
index 2bc893037..b6165f3f2 100644
--- a/sci-biology/gap2caf/metadata.xml
+++ b/sci-biology/gap2caf/metadata.xml
@@ -1,4 +1,4 @@
-<?xml version="1.0" encoding="UTF-8"?>
+<?xml version='1.0' encoding='UTF-8'?>
 <!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd">
 <pkgmetadata>
   <herd>sci-biology</herd>
@@ -6,4 +6,7 @@
     <email>mmokrejs@fold.natur.cuni.cz</email>
     <name>Martin Mokrejs</name>
   </maintainer>
+  <upstream>
+    <remote-id type="sourceforge">downloads</remote-id>
+  </upstream>
 </pkgmetadata>
diff --git a/sci-biology/kallisto/metadata.xml b/sci-biology/kallisto/metadata.xml
index b7551a6aa..39256c406 100644
--- a/sci-biology/kallisto/metadata.xml
+++ b/sci-biology/kallisto/metadata.xml
@@ -1,4 +1,4 @@
-<?xml version="1.0" encoding="UTF-8"?>
+<?xml version='1.0' encoding='UTF-8'?>
 <!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd">
 <pkgmetadata>
   <herd>sci-biology</herd>
@@ -6,4 +6,7 @@
     <email>mschu.dev@gmail.com</email>
     <name>Michael Schubert</name>
   </maintainer>
+  <upstream>
+    <remote-id type="github">pachterlab/kallisto</remote-id>
+  </upstream>
 </pkgmetadata>
diff --git a/sci-biology/mne-python/metadata.xml b/sci-biology/mne-python/metadata.xml
index 897aa2e6b..341e626b0 100644
--- a/sci-biology/mne-python/metadata.xml
+++ b/sci-biology/mne-python/metadata.xml
@@ -1,5 +1,8 @@
-<?xml version="1.0" encoding="UTF-8"?>
+<?xml version='1.0' encoding='UTF-8'?>
 <!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd">
 <pkgmetadata>
   <herd>sci</herd>
+  <upstream>
+    <remote-id type="github">mne-tools/mne-python</remote-id>
+  </upstream>
 </pkgmetadata>
diff --git a/sci-biology/pb-honey/metadata.xml b/sci-biology/pb-honey/metadata.xml
index 2bc893037..cf881b1c2 100644
--- a/sci-biology/pb-honey/metadata.xml
+++ b/sci-biology/pb-honey/metadata.xml
@@ -1,4 +1,4 @@
-<?xml version="1.0" encoding="UTF-8"?>
+<?xml version='1.0' encoding='UTF-8'?>
 <!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd">
 <pkgmetadata>
   <herd>sci-biology</herd>
@@ -6,4 +6,7 @@
     <email>mmokrejs@fold.natur.cuni.cz</email>
     <name>Martin Mokrejs</name>
   </maintainer>
+  <upstream>
+    <remote-id type="sourceforge">pb-jelly</remote-id>
+  </upstream>
 </pkgmetadata>
diff --git a/sci-biology/pb-jelly/metadata.xml b/sci-biology/pb-jelly/metadata.xml
index 2bc893037..cf881b1c2 100644
--- a/sci-biology/pb-jelly/metadata.xml
+++ b/sci-biology/pb-jelly/metadata.xml
@@ -1,4 +1,4 @@
-<?xml version="1.0" encoding="UTF-8"?>
+<?xml version='1.0' encoding='UTF-8'?>
 <!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd">
 <pkgmetadata>
   <herd>sci-biology</herd>
@@ -6,4 +6,7 @@
     <email>mmokrejs@fold.natur.cuni.cz</email>
     <name>Martin Mokrejs</name>
   </maintainer>
+  <upstream>
+    <remote-id type="sourceforge">pb-jelly</remote-id>
+  </upstream>
 </pkgmetadata>
diff --git a/sci-biology/psychopy/metadata.xml b/sci-biology/psychopy/metadata.xml
index 6d519f514..89798a05f 100644
--- a/sci-biology/psychopy/metadata.xml
+++ b/sci-biology/psychopy/metadata.xml
@@ -1,8 +1,11 @@
-<?xml version="1.0" encoding="UTF-8"?>
+<?xml version='1.0' encoding='UTF-8'?>
 <!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd">
 <pkgmetadata>
   <maintainer>
     <email>h.chr@mail.ru</email>
     <name>TheChymera</name>
   </maintainer>
+  <upstream>
+    <remote-id type="sourceforge">psychpy</remote-id>
+  </upstream>
 </pkgmetadata>
diff --git a/sci-biology/pysam/metadata.xml b/sci-biology/pysam/metadata.xml
index 49afc3c3d..de38eb59c 100644
--- a/sci-biology/pysam/metadata.xml
+++ b/sci-biology/pysam/metadata.xml
@@ -1,8 +1,9 @@
-<?xml version="1.0" encoding="UTF-8"?>
+<?xml version='1.0' encoding='UTF-8'?>
 <!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd">
 <pkgmetadata>
   <herd>sci-biology</herd>
   <upstream>
     <remote-id type="google-code">pysam</remote-id>
+    <remote-id type="github">pysam-developers/pysam</remote-id>
   </upstream>
 </pkgmetadata>
diff --git a/sci-biology/pysurfer/metadata.xml b/sci-biology/pysurfer/metadata.xml
index 897aa2e6b..c1e283f80 100644
--- a/sci-biology/pysurfer/metadata.xml
+++ b/sci-biology/pysurfer/metadata.xml
@@ -1,5 +1,8 @@
-<?xml version="1.0" encoding="UTF-8"?>
+<?xml version='1.0' encoding='UTF-8'?>
 <!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd">
 <pkgmetadata>
   <herd>sci</herd>
+  <upstream>
+    <remote-id type="github">nipy/PySurfer</remote-id>
+  </upstream>
 </pkgmetadata>
diff --git a/sci-biology/quast/metadata.xml b/sci-biology/quast/metadata.xml
index 2bc893037..62eb78998 100644
--- a/sci-biology/quast/metadata.xml
+++ b/sci-biology/quast/metadata.xml
@@ -1,4 +1,4 @@
-<?xml version="1.0" encoding="UTF-8"?>
+<?xml version='1.0' encoding='UTF-8'?>
 <!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd">
 <pkgmetadata>
   <herd>sci-biology</herd>
@@ -6,4 +6,7 @@
     <email>mmokrejs@fold.natur.cuni.cz</email>
     <name>Martin Mokrejs</name>
   </maintainer>
+  <upstream>
+    <remote-id type="sourceforge">quast</remote-id>
+  </upstream>
 </pkgmetadata>
diff --git a/sci-biology/subread/metadata.xml b/sci-biology/subread/metadata.xml
index 2bc893037..ed99a6dc9 100644
--- a/sci-biology/subread/metadata.xml
+++ b/sci-biology/subread/metadata.xml
@@ -1,4 +1,4 @@
-<?xml version="1.0" encoding="UTF-8"?>
+<?xml version='1.0' encoding='UTF-8'?>
 <!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd">
 <pkgmetadata>
   <herd>sci-biology</herd>
@@ -6,4 +6,7 @@
     <email>mmokrejs@fold.natur.cuni.cz</email>
     <name>Martin Mokrejs</name>
   </maintainer>
+  <upstream>
+    <remote-id type="sourceforge">subread</remote-id>
+  </upstream>
 </pkgmetadata>