[med-svn] [inspect] 01/02: InsPect expects psyco which is outdated and dead. Add a warning that migration to pypy should be done.

[Andreas Tille]

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in repository inspect.

commit edb2941de7ec8d0b2306ca6ce59fc8252ee4c350
Author: Andreas Tille <tille at debian.org>
Date:   Thu Oct 1 13:22:27 2015 +0200

    InsPect expects psyco which is outdated and dead.  Add a warning that migration to pypy should be done.
---
 debian/README.Debian                    |  5 ++++
 debian/patches/psyco-pypy-warning.patch | 48 +++++++++++++++++++++++++++++++++
 debian/patches/series                   |  1 +
 3 files changed, 54 insertions(+)

diff --git a/debian/README.Debian b/debian/README.Debian
index 8514c15..68881f4 100644
--- a/debian/README.Debian
+++ b/debian/README.Debian
@@ -5,4 +5,9 @@ Due to a naming conflict with /usr/bin/inspect from the libboost-tools-dev
 package the binary was renamed to ms-inspect.  Please suggest better names
 if you would expect the binary under a different name.
 
+InsPect makes use of Psyco which is unmaintained and dead upstream according to
+  http://psyco.sourceforge.net/
+Any patch to use PyPy instead would be welcome.
+
+
  -- Andreas Tille <tille at debian.org>  Tue, 29 Sep 2015 15:21:50 +0200
diff --git a/debian/patches/psyco-pypy-warning.patch b/debian/patches/psyco-pypy-warning.patch
new file mode 100644
index 0000000..e52304c
--- /dev/null
+++ b/debian/patches/psyco-pypy-warning.patch
@@ -0,0 +1,48 @@
+Author: Andreas Tille <tille at debian.org>
+Last-Update: Tue, 29 Sep 2015 15:21:50 +0200
+Description: Extend warning about a hint that InsPecT should be migrated to pypy.
+
+--- a/Summary.py
++++ b/Summary.py
+@@ -462,7 +462,7 @@ if __name__ == "__main__":
+         import psyco
+         psyco.full()
+     except:
+-        print "(psyco not found - running in non-optimized mode)"
++        print "(psyco not found - running in non-optimized mode. Please help migrating InsPecT to pypy!)"
+     Summarizer = SummarizerClass()
+     Summarizer.ParseCommandLine(sys.argv[1:])
+     StartTime = time.clock()
+--- a/InspectToPepXML.py
++++ b/InspectToPepXML.py
+@@ -275,7 +275,7 @@ class InspectToPepXMLClass(ResultsParser
+             import psyco
+             psyco.full()
+         except:
+-            print "(psyco not found - running in non-optimized mode)"
++            print "(psyco not found - running in non-optimized mode. Please help migrating InsPecT to pypy!)"
+         # Line directly below needed only if we want to handle directories
+         #self.self.ProcessResultsFiles(self.InputFilePath,
+         #    self.ConvertInspectToPepXML)
+--- a/PhosphateLocalization.py
++++ b/PhosphateLocalization.py
+@@ -318,7 +318,7 @@ if __name__ == "__main__":
+         import psyco
+         psyco.full()
+     except:
+-        print "(psyco not found - running in non-optimized mode)"
++        print "(psyco not found - running in non-optimized mode. Please help migrating InsPecT to pypy!)"
+     MacGyver = DetectiveClass()
+     MacGyver.ParseCommandLine(sys.argv[1:])
+     MacGyver.Main()
+--- a/PrepDB.py
++++ b/PrepDB.py
+@@ -245,7 +245,7 @@ if __name__ == "__main__":
+         import psyco
+         psyco.full()
+     except:
+-        print "(psyco not found - running in non-optimized mode)"
++        print "(psyco not found - running in non-optimized mode. Please help migrating InsPecT to pypy!)"
+     # First argument: Original database file format
+     Format = sys.argv[1].lower()
+     if Format == "fasta":
diff --git a/debian/patches/series b/debian/patches/series
index 814900f..22d69ef 100644
--- a/debian/patches/series
+++ b/debian/patches/series
@@ -1 +1,2 @@
 hardening.patch
+psyco-pypy-warning.patch

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