Proteopedia:Problems: Difference between revisions

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Green links need to work in Firefox version 2, with Java version 1.60_03 and higher! --working on it --[[User:Eran Hodis|Eran Hodis]] 20:13, 12 April 2008 (IDT)

'''Help: Searching''' needs to be revised to agree with the actual search behavior (which needs careful testing) and to explain the limitations and advantages (with examples) of the WikiMedia Search (as modified) vs. the Google search. [[User:Eric Martz|Eric Martz]] 19:20, 13 April 2008 (IDT)

'''SOLVED''' (''Pages in the User namespace can now have Jmol Scenes'') Document that pages in the User: namespace cannot have Jmol scenes, or else enable that. It seems natural for users to put scenes on their personal pages. If it is to remain disabled, then the SAT should not be openable, and instead a message of explanation should appear where the SAT +/- normally is. [[User:Emartz|Emartz]] 20:50, 26 March 2008 (IST)

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'''Scene tags placed in a bulleted list''' don't display as green links. [[User:Emartz|Emartz]] 17:36, 28 February 2008 (IST)

Workaround: Use standard bullet list HTML notation instead of wikitext markup [[User:J Prilusky|J Prilusky]] 9:11 3 March 2008

'''Models with >100,000 atoms''' fail to display due to java memory limitations. These are <0.1% of the PDB. I suggest that a box be inserted automatically (from a template) on such pages that explains why Jmol remains blank. We should test whether increasing the memory allocated to java reduces this problem, and if so, provide an explanation of how to increase java memory in Win and OS X. See also [http://bioportal.weizmann.ac.il/oca-docs/fgij/bigpdb.htm tests with big PDB files] and a [http://bip.weizmann.ac.il/oca-docs/PDBRecNamStats/PDBSizeDistribution.html list of the largest files in the PDB]. [[User:Eric Martz|Eric Martz]] 19:20, 13 April 2008 (IDT)

Proteopedia:Problems: Difference between revisions

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@@ Line 6: / Line 6: @@
 <font color='red'>Green links need to work in Firefox version 2, with Java version 1.60_03 and higher!</font> --working on it --[[User:Eran Hodis|Eran Hodis]] 20:13, 12 April 2008 (IDT)
+'''Help: Searching''' needs to be revised to agree with the actual search behavior (which needs careful testing) and to explain the limitations and advantages (with examples) of the WikiMedia Search (as modified) vs. the Google search. [[User:Eric Martz|Eric Martz]] 19:20, 13 April 2008 (IDT)
 <span style="background-color:yellow;color:green">'''SOLVED'''</span> (''Pages in the User namespace can now have Jmol Scenes'') Document that pages in the User: namespace cannot have Jmol scenes, or else enable that. It seems natural for users to put scenes on their personal pages. If it is to remain disabled, then the SAT should not be openable, and instead a message of explanation should appear where the SAT +/- normally is. [[User:Emartz|Emartz]] 20:50, 26 March 2008 (IST)
@@ Line 39: / Line 41: @@
 '''Scene tags placed in a bulleted list''' don't display as green links. [[User:Emartz|Emartz]] 17:36, 28 February 2008 (IST)
 <u><i>Workaround</i></u>: Use standard bullet list HTML notation instead of wikitext markup  [[User:J Prilusky|J Prilusky]] 9:11 3 March 2008
+'''Models with >100,000 atoms''' fail to display due to java memory limitations. These are <0.1% of the PDB. I suggest that a box be inserted automatically (from a template) on such pages that explains why Jmol remains blank. We should test whether increasing the memory allocated to java reduces this problem, and if so, provide an explanation of how to increase java memory in Win and OS X. See also [http://bioportal.weizmann.ac.il/oca-docs/fgij/bigpdb.htm tests with big PDB  files] and a [http://bip.weizmann.ac.il/oca-docs/PDBRecNamStats/PDBSizeDistribution.html list of the largest files in the PDB]. [[User:Eric Martz|Eric Martz]] 19:20, 13 April 2008 (IDT)