20130109-debug-oddb2xml-gem-fi-product-windows-support

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Summary

• Updated oddb2xml
  • pusheh fi-product.xml commit
  • Repair gemspec file

Commits

• Restore Gemfile to use gemspec file
• Restore oddb2xml.gemspec
• Add oddb_fi_product.xml output to fi option
• Improve using of memory at file reading for mswin
• Add interaction.xml and code.xml output

Index

• Debug gem release
• Create oddb2xml oddb_fi_product.xml
• Windows support
• Create oddb_interaction.xml

Debug gem release

oddb2xml-1.1.2 does not have any gemspec. (it does not install dependency.)

commit

• Restore Gemfile to use gemspec file
• Restore oddb2xml.gemspec

Create oddb2xml oddb_fi_product.xml

oddb_fi_product.xml

<?xml version="1.0" encoding="utf-8"?>
<KOMPENDIUM_PRODUCT xmlns:xsd="http://www.w3.org/2001/XMLSchema" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xmlns="http://wiki.oddb.org/wiki.php?pagename=Swissmedic.Datendeklaration" CREATION_DATETIME="2013-01-09T08:58:35.1206580+0900" PROD_DATE="2013-01-09T08:58:35.1206580+0900" VALID_DATE="2013-01-09T08:58:35.1206580+0900">
  <KP DT="">
    <MONID>53663</MONID>
    <PRDNO>8621</PRDNO>
    <DEL>false</DEL>
  </KP> 
  <KP DT="">
    <MONID>14825</MONID>
    <PRDNO>4</PRDNO>
    <DEL>false</DEL>
  </KP> 
  ...

commit

• Add oddb_fi_product.xml output to fi option

Windows support

NoMemoryError

C:/Ruby193/lib/ruby/gems/1.9.1/gems/rubyzip-0.9.9/lib/zip/inflater.rb:14:in
`sysread': failed to allocate memory (NoMemoryError)
        from C:/Ruby193/lib/ruby/gems/1.9.1/gems/rubyzip-0.9.9/lib/zip/zip_input_stream.rb:106:in
`sysread'
        from C:/Ruby193/lib/ruby/gems/1.9.1/gems/rubyzip-0.9.9/lib/zip/ioextras.rb:59:in
`read'

Windows can not free memory by itself.

try to use :File#gets: for mswin (on Windows platform).

commit

• Improve using of memory at file reading for mswin

Ref.

• https://github.com/fog/fog/issues/209 (fog)
• https://groups.google.com/forum/?fromgroups=#!topic/nokogiri-talk/hgD8IQEgqaM (nokogiri)
• http://zakinco.hatenablog.com/entry/2012/08/07/124548 (japanese)

Create oddb_interaction.xml

• http://community.epha.ch/interactions_de_utf8.csv

Only DE file.

fr

<Error><Code>AccessDenied</Code><Message>Access Denied</Message><RequestId>2F9C7C18855A1BCD</RequestId><HostId>8NoYrPbDieyYd9m1OmDfPJ1jd0ul4DfANOWFH7zXjyUl9FtX5sWlS28D2AuCYEN5</HostId></Error>

interaction.xml

<?xml version="1.0" encoding="utf-8"?>
<INTERACTION xmlns:xsd="http://www.w3.org/2001/XMLSchema" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xmlns="http://wiki.oddb.org/wiki.php?pagename=Swissmedic.Datendeklaration" CREATION_DATETIME="2013-01-09T17:16:12.0692179+0900" PROD_DATE="2013-01-09T17:16:12.0692179+0900" VALID_DATE="2013-01-09T17:16:12.0692179+0900">
  <IX DT="">
    <IXNO>1</IXNO>
    <GRP1D>N06AB06</GRP1D>
    <GRP2D>M03BX02</GRP2D>
    <EFFD>Keine Interaktion.</EFFD>
    <RLV>16</RLV>
    <RLVD>keine Massnahmen</RLVD>
    <MECHD>Tizanidin wird über CYP1A2 metabolisiert. Sertralin beeinflusst CYP1A2 jedoch nicht.</MECHD>
    <MEASD>Die Kombination aus Sertralin und Tizanidin hat kein bekanntes Interaktionspotential.</MEASD>
    <DEL>false</DEL>
  </IX> 
  ...

code.xml

<?xml version="1.0" encoding="utf-8"?>
<CODE xmlns:xsd="http://www.w3.org/2001/XMLSchema" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xmlns="http://wiki.oddb.org/wiki.php?pagename=Swissmedic.Datendeklaration" CREATION_DATETIME="2013-01-09T17:16:12.9758896+0900" PROD_DATE="2013-01-09T17:16:12.9758896+0900" VALID_DATE="2013-01-09T17:16:12.9758896+0900">
  <CD DT="">
    <CDTYP>11</CDTYP>
    <CDVAL>X</CDVAL>
    <DSCRSD>Kontraindiziert</DSCRSD>
    <DEL>false</DEL>
  </CD>
  <CD DT="">
    <CDTYP>12</CDTYP>
    <CDVAL>E</CDVAL>
    <DSCRSD>Kontraindiziert</DSCRSD>
    <DEL>false</DEL>
  </CD>
  ...

commit

• Add interaction.xml and code.xml output