From 3cecb466c65b230f5e0ad6c83e2a73482ce695a0 Mon Sep 17 00:00:00 2001
From: Alexander OSTROVSKY <alexanderostrovsky@Caroline.local>
Date: Tue, 14 May 2019 16:50:51 -0400
Subject: [PATCH 1/4] tensorflow checkpoint file support

---
 config/datatypes_conf.xml.sample | 1 +
 lib/galaxy/datatypes/binary.py   | 7 +++++++
 2 files changed, 8 insertions(+)

diff --git a/config/datatypes_conf.xml.sample b/config/datatypes_conf.xml.sample
index 5d048b3f48d..d28b23cb12d 100644
--- a/config/datatypes_conf.xml.sample
+++ b/config/datatypes_conf.xml.sample
@@ -736,6 +736,7 @@
     <datatype extension="dada2_mergepairs" type="galaxy.datatypes.binary:RData" subclass="true" display_in_upload="true" />
     <datatype extension="dada2_sequencetable" type="galaxy.datatypes.tabular:Tabular" mimetype="application/text" subclass="true" display_in_upload="true" />
     <datatype extension="dada2_uniques" type="galaxy.datatypes.tabular:Tabular" mimetype="application/text" subclass="true" display_in_upload="true" />
+    <datatype extension="ckpt" type="galaxy.datatypes.binary:Tensorflow" display_in_upload="true" />
   </registration>
   <sniffers>
     <!--
diff --git a/lib/galaxy/datatypes/binary.py b/lib/galaxy/datatypes/binary.py
index 6ada00bde4a..f6ff8d58f06 100644
--- a/lib/galaxy/datatypes/binary.py
+++ b/lib/galaxy/datatypes/binary.py
@@ -2407,6 +2407,13 @@ class WiffTar(BafTar):
         return "Sciex WIFF/SCAN archive"
 
 
+class Tensorflow(Binary):
+    """
+    Checkpoint files for tensorflow models
+    """
+    file_ext = "ckpt"
+
+
 if __name__ == '__main__':
     import doctest
     doctest.testmod(sys.modules[__name__])

From efebceb7c118b178189137023abe91c03dc5980a Mon Sep 17 00:00:00 2001
From: Alexander OSTROVSKY <alexanderostrovsky@Caroline.local>
Date: Wed, 15 May 2019 09:16:55 -0400
Subject: [PATCH 2/4] ckpt as a subclass

---
 config/datatypes_conf.xml.sample | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/config/datatypes_conf.xml.sample b/config/datatypes_conf.xml.sample
index d28b23cb12d..d27b931909e 100644
--- a/config/datatypes_conf.xml.sample
+++ b/config/datatypes_conf.xml.sample
@@ -736,7 +736,7 @@
     <datatype extension="dada2_mergepairs" type="galaxy.datatypes.binary:RData" subclass="true" display_in_upload="true" />
     <datatype extension="dada2_sequencetable" type="galaxy.datatypes.tabular:Tabular" mimetype="application/text" subclass="true" display_in_upload="true" />
     <datatype extension="dada2_uniques" type="galaxy.datatypes.tabular:Tabular" mimetype="application/text" subclass="true" display_in_upload="true" />
-    <datatype extension="ckpt" type="galaxy.datatypes.binary:Tensorflow" display_in_upload="true" />
+    <datatype extension="ckpt" type="galaxy.datatypes.binary:Tensorflow" subclass="true" display_in_upload="true" />
   </registration>
   <sniffers>
     <!--

From 2ba9646710ab35e4ea83079b4ebc9fbba4f0355e Mon Sep 17 00:00:00 2001
From: Alex Ostrovsky <40246333+astrovsky01@users.noreply.github.com>
Date: Thu, 16 May 2019 07:06:00 -0400
Subject: [PATCH 3/4] Update config/datatypes_conf.xml.sample

Co-Authored-By: Nicola Soranzo <nicola.soranzo@gmail.com>
---
 config/datatypes_conf.xml.sample | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/config/datatypes_conf.xml.sample b/config/datatypes_conf.xml.sample
index d27b931909e..08c83b43267 100644
--- a/config/datatypes_conf.xml.sample
+++ b/config/datatypes_conf.xml.sample
@@ -736,7 +736,7 @@
     <datatype extension="dada2_mergepairs" type="galaxy.datatypes.binary:RData" subclass="true" display_in_upload="true" />
     <datatype extension="dada2_sequencetable" type="galaxy.datatypes.tabular:Tabular" mimetype="application/text" subclass="true" display_in_upload="true" />
     <datatype extension="dada2_uniques" type="galaxy.datatypes.tabular:Tabular" mimetype="application/text" subclass="true" display_in_upload="true" />
-    <datatype extension="ckpt" type="galaxy.datatypes.binary:Tensorflow" subclass="true" display_in_upload="true" />
+    <datatype extension="ckpt" type="galaxy.datatypes.binary:Binary" subclass="true" display_in_upload="true" />
   </registration>
   <sniffers>
     <!--

From 6b9676e9d81b175d5fbca0f47b1096731c2d3346 Mon Sep 17 00:00:00 2001
From: Alexander OSTROVSKY <alexanderostrovsky@Caroline.local>
Date: Thu, 16 May 2019 09:31:36 -0400
Subject: [PATCH 4/4] extra class removed

---
 lib/galaxy/datatypes/binary.py | 7 -------
 1 file changed, 7 deletions(-)

diff --git a/lib/galaxy/datatypes/binary.py b/lib/galaxy/datatypes/binary.py
index f6ff8d58f06..6ada00bde4a 100644
--- a/lib/galaxy/datatypes/binary.py
+++ b/lib/galaxy/datatypes/binary.py
@@ -2407,13 +2407,6 @@ class WiffTar(BafTar):
         return "Sciex WIFF/SCAN archive"
 
 
-class Tensorflow(Binary):
-    """
-    Checkpoint files for tensorflow models
-    """
-    file_ext = "ckpt"
-
-
 if __name__ == '__main__':
     import doctest
     doctest.testmod(sys.modules[__name__])