From 24e6557939ed885f5292e0fb7dfc4a23f4d04a57 Mon Sep 17 00:00:00 2001
From: "UENO, M."
Date: Wed, 9 Oct 2024 09:30:58 +0000
Subject: [PATCH 1/5] Update coot.desktop considering flatpak package
---
coot.desktop | 5 +++--
1 file changed, 3 insertions(+), 2 deletions(-)
diff --git a/coot.desktop b/coot.desktop
index 10f1efac8..164d2282f 100644
--- a/coot.desktop
+++ b/coot.desktop
@@ -1,9 +1,10 @@
[Desktop Entry]
Type=Application
Name=Coot
+GenericName=Crystallographic Object-Oriented Toolkit
Comment=Macromolecular model builder
Exec=coot %f
-Icon=coot
+Icon=io.github.pemsley.coot
Terminal=true
-Categories=Science;Chemistry;
+Categories=Science;Chemistry;Biology;GTK;
MimeType=chemical/x-pdb;chemical/x-mmcif;chemical/x-mdl-molfile;
From 42b31217403fbdb50d8b9bd26dc5654da8c091a0 Mon Sep 17 00:00:00 2001
From: "UENO, M."
Date: Wed, 9 Oct 2024 09:31:23 +0000
Subject: [PATCH 2/5] Update coot.appdata.xml considering flatpak package
---
coot.appdata.xml | 15 +++++++++++----
1 file changed, 11 insertions(+), 4 deletions(-)
diff --git a/coot.appdata.xml b/coot.appdata.xml
index 19bccb947..340ac666a 100644
--- a/coot.appdata.xml
+++ b/coot.appdata.xml
@@ -1,7 +1,7 @@
-
+
- org.emsley.coot
+ io.github.pemsley.coot
GFDL-1.3
GPL-2.0+ and GPL-3.0+ and LGPL-3.0+
Coot
@@ -16,7 +16,7 @@
refinement.
- Coot is used by scientists using X-ray crystallography for
+ Coot is used by scientists using X-ray crystallography or cryo-EM for
analysis of proteins, electron density maps, protein interactions
and drug design.
@@ -31,6 +31,13 @@
Coot can be used to convert from 2D ligands to 3D and from 3D to 2D
- http://www2.mrc-lmb.cam.ac.uk/Personal/pemsley/coot/
+ https://www2.mrc-lmb.cam.ac.uk/personal/pemsley/coot/
+ https://www2.mrc-lmb.cam.ac.uk/personal/pemsley/coot/web/docs
+ https://github.com/pemsley/coot/issues
+ Paul Emsley
pemsley _at_ mrc dash lmb.cam.ac.uk
+
+
+
+
From 1106feceda38fe45e3732e923d287f09682b8711 Mon Sep 17 00:00:00 2001
From: "UENO, M."
Date: Wed, 9 Oct 2024 09:55:35 +0000
Subject: [PATCH 3/5] Update copyright span and icon name
---
coot.appdata.xml | 2 +-
coot.desktop | 2 +-
2 files changed, 2 insertions(+), 2 deletions(-)
diff --git a/coot.appdata.xml b/coot.appdata.xml
index 340ac666a..aaee84696 100644
--- a/coot.appdata.xml
+++ b/coot.appdata.xml
@@ -1,5 +1,5 @@
-
+
io.github.pemsley.coot
GFDL-1.3
diff --git a/coot.desktop b/coot.desktop
index 164d2282f..5b854ad6e 100644
--- a/coot.desktop
+++ b/coot.desktop
@@ -4,7 +4,7 @@ Name=Coot
GenericName=Crystallographic Object-Oriented Toolkit
Comment=Macromolecular model builder
Exec=coot %f
-Icon=io.github.pemsley.coot
+Icon=coot
Terminal=true
Categories=Science;Chemistry;Biology;GTK;
MimeType=chemical/x-pdb;chemical/x-mmcif;chemical/x-mdl-molfile;
From 0e2e93936d0ebf4206e1f17b657d283b8f4fecfa Mon Sep 17 00:00:00 2001
From: "UENO, M."
Date: Wed, 9 Oct 2024 11:26:16 +0000
Subject: [PATCH 4/5] Update coot.appdata.xml
---
coot.appdata.xml | 10 +++++++---
1 file changed, 7 insertions(+), 3 deletions(-)
diff --git a/coot.appdata.xml b/coot.appdata.xml
index aaee84696..0c0606703 100644
--- a/coot.appdata.xml
+++ b/coot.appdata.xml
@@ -1,7 +1,8 @@
-
+
io.github.pemsley.coot
+ io.github.pemsley.coot.desktop
GFDL-1.3
GPL-2.0+ and GPL-3.0+ and LGPL-3.0+
Coot
@@ -34,8 +35,11 @@
https://www2.mrc-lmb.cam.ac.uk/personal/pemsley/coot/
https://www2.mrc-lmb.cam.ac.uk/personal/pemsley/coot/web/docs
https://github.com/pemsley/coot/issues
- Paul Emsley
- pemsley _at_ mrc dash lmb.cam.ac.uk
+
+ pemsley
+ Paul Emsley
+
+ pemsley@mrc-lmb.cam.ac.uk
From f46c10daa3d2ef120fd105d4056338e7acd1fa08 Mon Sep 17 00:00:00 2001
From: "UENO, M."
Date: Wed, 9 Oct 2024 21:40:58 +0900
Subject: [PATCH 5/5] Update coot.appdata.xml
---
coot.appdata.xml | 10 ++++++----
1 file changed, 6 insertions(+), 4 deletions(-)
diff --git a/coot.appdata.xml b/coot.appdata.xml
index 0c0606703..52580bb62 100644
--- a/coot.appdata.xml
+++ b/coot.appdata.xml
@@ -24,22 +24,24 @@
- http://www2.mrc-lmb.cam.ac.uk/personal/pemsley/coot/web/screenshots/other/coot-viagra-1.png
+ https://www2.mrc-lmb.cam.ac.uk/personal/pemsley/coot/web/screenshots/other/coot-viagra-1.png
Coot is typically used to view protein models and electron density
- http://www2.mrc-lmb.cam.ac.uk/personal/pemsley/coot/web/screenshots/other/coot-ligand-builder.png
+ https://www2.mrc-lmb.cam.ac.uk/personal/pemsley/coot/web/screenshots/other/coot-ligand-builder.png
Coot can be used to convert from 2D ligands to 3D and from 3D to 2D
+
+ https://www2.mrc-lmb.cam.ac.uk/personal/pemsley/coot/web/screenshots/apoferritin/sapphires-and-emeralds.png
+
https://www2.mrc-lmb.cam.ac.uk/personal/pemsley/coot/
https://www2.mrc-lmb.cam.ac.uk/personal/pemsley/coot/web/docs
https://github.com/pemsley/coot/issues
- pemsley
Paul Emsley
+ mailto:pemsley@mrc-lmb.cam.ac.uk
- pemsley@mrc-lmb.cam.ac.uk