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1962 lines
86 KiB
HTML
1962 lines
86 KiB
HTML
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<head>
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<meta http-equiv=Content-Type content="text/html; charset=windows-1252">
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<meta name=Generator content="Microsoft Word 14">
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<o:DocumentProperties>
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<o:Author>Abhas Bhattacharya</o:Author>
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<o:LastAuthor>Abhas Bhattacharya</o:LastAuthor>
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<o:Revision>7</o:Revision>
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<o:TotalTime>44</o:TotalTime>
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<o:Created>2013-04-23T21:30:00Z</o:Created>
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UnhideWhenUsed="false" QFormat="true" Name="Intense Emphasis"/>
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h1
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a:link, span.MsoHyperlink
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{mso-style-priority:99;
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a:visited, span.MsoHyperlinkFollowed
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color:purple;
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mso-themecolor:followedhyperlink;
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p.MsoAcetate, li.MsoAcetate, div.MsoAcetate
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span.MsoSubtleEmphasis
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mso-themecolor:text1;
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span.Heading1Char
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{mso-style-name:"Heading 1 Char";
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mso-themecolor:accent1;
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mso-themeshade:191;
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font-weight:bold;}
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span.TitleChar
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{mso-style-name:"Title Char";
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mso-themeshade:191;
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span.BalloonTextChar
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{mso-style-name:"Balloon Text Char";
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mso-style-noshow:yes;
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mso-style-priority:99;
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mso-ascii-font-family:Tahoma;
|
|
mso-hansi-font-family:Tahoma;
|
|
mso-bidi-font-family:Tahoma;}
|
|
.MsoChpDefault
|
|
{mso-style-type:export-only;
|
|
mso-default-props:yes;
|
|
font-size:10.0pt;
|
|
mso-ansi-font-size:10.0pt;
|
|
mso-bidi-font-size:10.0pt;
|
|
font-family:"Calibri","sans-serif";
|
|
mso-ascii-font-family:Calibri;
|
|
mso-ascii-theme-font:minor-latin;
|
|
mso-fareast-font-family:Calibri;
|
|
mso-fareast-theme-font:minor-latin;
|
|
mso-hansi-font-family:Calibri;
|
|
mso-hansi-theme-font:minor-latin;
|
|
mso-bidi-font-family:"Times New Roman";
|
|
mso-bidi-theme-font:minor-bidi;}
|
|
@page WordSection1
|
|
{size:841.95pt 1190.7pt;
|
|
margin:1.0in 1.0in 1.0in 1.0in;
|
|
mso-header-margin:.5in;
|
|
mso-footer-margin:.5in;
|
|
mso-paper-source:0;}
|
|
div.WordSection1
|
|
{page:WordSection1;}
|
|
/* List Definitions */
|
|
@list l0
|
|
{mso-list-id:507525435;
|
|
mso-list-type:hybrid;
|
|
mso-list-template-ids:-1165307698 67698703 67698703 67698715 67698703 67698713 67698715 67698703 67698713 67698715;}
|
|
@list l0:level1
|
|
{mso-level-tab-stop:none;
|
|
mso-level-number-position:left;
|
|
text-indent:-.25in;}
|
|
@list l0:level2
|
|
{mso-level-tab-stop:none;
|
|
mso-level-number-position:left;
|
|
text-indent:-.25in;}
|
|
@list l0:level3
|
|
{mso-level-number-format:roman-lower;
|
|
mso-level-tab-stop:none;
|
|
mso-level-number-position:right;
|
|
text-indent:-9.0pt;}
|
|
@list l0:level4
|
|
{mso-level-tab-stop:none;
|
|
mso-level-number-position:left;
|
|
text-indent:-.25in;}
|
|
@list l0:level5
|
|
{mso-level-number-format:alpha-lower;
|
|
mso-level-tab-stop:none;
|
|
mso-level-number-position:left;
|
|
text-indent:-.25in;}
|
|
@list l0:level6
|
|
{mso-level-number-format:roman-lower;
|
|
mso-level-tab-stop:none;
|
|
mso-level-number-position:right;
|
|
text-indent:-9.0pt;}
|
|
@list l0:level7
|
|
{mso-level-tab-stop:none;
|
|
mso-level-number-position:left;
|
|
text-indent:-.25in;}
|
|
@list l0:level8
|
|
{mso-level-number-format:alpha-lower;
|
|
mso-level-tab-stop:none;
|
|
mso-level-number-position:left;
|
|
text-indent:-.25in;}
|
|
@list l0:level9
|
|
{mso-level-number-format:roman-lower;
|
|
mso-level-tab-stop:none;
|
|
mso-level-number-position:right;
|
|
text-indent:-9.0pt;}
|
|
@list l1
|
|
{mso-list-id:894318492;
|
|
mso-list-type:hybrid;
|
|
mso-list-template-ids:876519090 67698689 67698691 67698693 67698689 67698691 67698693 67698689 67698691 67698693;}
|
|
@list l1:level1
|
|
{mso-level-number-format:bullet;
|
|
mso-level-text:\F0B7;
|
|
mso-level-tab-stop:none;
|
|
mso-level-number-position:left;
|
|
margin-left:1.0in;
|
|
text-indent:-.25in;
|
|
font-family:Symbol;}
|
|
@list l1:level2
|
|
{mso-level-number-format:bullet;
|
|
mso-level-text:o;
|
|
mso-level-tab-stop:none;
|
|
mso-level-number-position:left;
|
|
margin-left:1.5in;
|
|
text-indent:-.25in;
|
|
font-family:"Courier New";}
|
|
@list l1:level3
|
|
{mso-level-number-format:bullet;
|
|
mso-level-text:\F0A7;
|
|
mso-level-tab-stop:none;
|
|
mso-level-number-position:left;
|
|
margin-left:2.0in;
|
|
text-indent:-.25in;
|
|
font-family:Wingdings;}
|
|
@list l1:level4
|
|
{mso-level-number-format:bullet;
|
|
mso-level-text:\F0B7;
|
|
mso-level-tab-stop:none;
|
|
mso-level-number-position:left;
|
|
margin-left:2.5in;
|
|
text-indent:-.25in;
|
|
font-family:Symbol;}
|
|
@list l1:level5
|
|
{mso-level-number-format:bullet;
|
|
mso-level-text:o;
|
|
mso-level-tab-stop:none;
|
|
mso-level-number-position:left;
|
|
margin-left:3.0in;
|
|
text-indent:-.25in;
|
|
font-family:"Courier New";}
|
|
@list l1:level6
|
|
{mso-level-number-format:bullet;
|
|
mso-level-text:\F0A7;
|
|
mso-level-tab-stop:none;
|
|
mso-level-number-position:left;
|
|
margin-left:3.5in;
|
|
text-indent:-.25in;
|
|
font-family:Wingdings;}
|
|
@list l1:level7
|
|
{mso-level-number-format:bullet;
|
|
mso-level-text:\F0B7;
|
|
mso-level-tab-stop:none;
|
|
mso-level-number-position:left;
|
|
margin-left:4.0in;
|
|
text-indent:-.25in;
|
|
font-family:Symbol;}
|
|
@list l1:level8
|
|
{mso-level-number-format:bullet;
|
|
mso-level-text:o;
|
|
mso-level-tab-stop:none;
|
|
mso-level-number-position:left;
|
|
margin-left:4.5in;
|
|
text-indent:-.25in;
|
|
font-family:"Courier New";}
|
|
@list l1:level9
|
|
{mso-level-number-format:bullet;
|
|
mso-level-text:\F0A7;
|
|
mso-level-tab-stop:none;
|
|
mso-level-number-position:left;
|
|
margin-left:5.0in;
|
|
text-indent:-.25in;
|
|
font-family:Wingdings;}
|
|
@list l2
|
|
{mso-list-id:1388718708;
|
|
mso-list-type:hybrid;
|
|
mso-list-template-ids:-1013425808 67698703 67698713 67698715 67698703 67698713 67698715 67698703 67698713 67698715;}
|
|
@list l2:level1
|
|
{mso-level-tab-stop:none;
|
|
mso-level-number-position:left;
|
|
text-indent:-.25in;}
|
|
@list l2:level2
|
|
{mso-level-number-format:alpha-lower;
|
|
mso-level-tab-stop:none;
|
|
mso-level-number-position:left;
|
|
text-indent:-.25in;}
|
|
@list l2:level3
|
|
{mso-level-number-format:roman-lower;
|
|
mso-level-tab-stop:none;
|
|
mso-level-number-position:right;
|
|
text-indent:-9.0pt;}
|
|
@list l2:level4
|
|
{mso-level-tab-stop:none;
|
|
mso-level-number-position:left;
|
|
text-indent:-.25in;}
|
|
@list l2:level5
|
|
{mso-level-number-format:alpha-lower;
|
|
mso-level-tab-stop:none;
|
|
mso-level-number-position:left;
|
|
text-indent:-.25in;}
|
|
@list l2:level6
|
|
{mso-level-number-format:roman-lower;
|
|
mso-level-tab-stop:none;
|
|
mso-level-number-position:right;
|
|
text-indent:-9.0pt;}
|
|
@list l2:level7
|
|
{mso-level-tab-stop:none;
|
|
mso-level-number-position:left;
|
|
text-indent:-.25in;}
|
|
@list l2:level8
|
|
{mso-level-number-format:alpha-lower;
|
|
mso-level-tab-stop:none;
|
|
mso-level-number-position:left;
|
|
text-indent:-.25in;}
|
|
@list l2:level9
|
|
{mso-level-number-format:roman-lower;
|
|
mso-level-tab-stop:none;
|
|
mso-level-number-position:right;
|
|
text-indent:-9.0pt;}
|
|
@list l3
|
|
{mso-list-id:1624657255;
|
|
mso-list-type:hybrid;
|
|
mso-list-template-ids:-1479218694 67698689 67698691 67698693 67698689 67698691 67698693 67698689 67698691 67698693;}
|
|
@list l3:level1
|
|
{mso-level-number-format:bullet;
|
|
mso-level-text:\F0B7;
|
|
mso-level-tab-stop:none;
|
|
mso-level-number-position:left;
|
|
text-indent:-.25in;
|
|
font-family:Symbol;}
|
|
@list l3:level2
|
|
{mso-level-number-format:bullet;
|
|
mso-level-text:o;
|
|
mso-level-tab-stop:none;
|
|
mso-level-number-position:left;
|
|
text-indent:-.25in;
|
|
font-family:"Courier New";}
|
|
@list l3:level3
|
|
{mso-level-number-format:bullet;
|
|
mso-level-text:\F0A7;
|
|
mso-level-tab-stop:none;
|
|
mso-level-number-position:left;
|
|
text-indent:-.25in;
|
|
font-family:Wingdings;}
|
|
@list l3:level4
|
|
{mso-level-number-format:bullet;
|
|
mso-level-text:\F0B7;
|
|
mso-level-tab-stop:none;
|
|
mso-level-number-position:left;
|
|
text-indent:-.25in;
|
|
font-family:Symbol;}
|
|
@list l3:level5
|
|
{mso-level-number-format:bullet;
|
|
mso-level-text:o;
|
|
mso-level-tab-stop:none;
|
|
mso-level-number-position:left;
|
|
text-indent:-.25in;
|
|
font-family:"Courier New";}
|
|
@list l3:level6
|
|
{mso-level-number-format:bullet;
|
|
mso-level-text:\F0A7;
|
|
mso-level-tab-stop:none;
|
|
mso-level-number-position:left;
|
|
text-indent:-.25in;
|
|
font-family:Wingdings;}
|
|
@list l3:level7
|
|
{mso-level-number-format:bullet;
|
|
mso-level-text:\F0B7;
|
|
mso-level-tab-stop:none;
|
|
mso-level-number-position:left;
|
|
text-indent:-.25in;
|
|
font-family:Symbol;}
|
|
@list l3:level8
|
|
{mso-level-number-format:bullet;
|
|
mso-level-text:o;
|
|
mso-level-tab-stop:none;
|
|
mso-level-number-position:left;
|
|
text-indent:-.25in;
|
|
font-family:"Courier New";}
|
|
@list l3:level9
|
|
{mso-level-number-format:bullet;
|
|
mso-level-text:\F0A7;
|
|
mso-level-tab-stop:none;
|
|
mso-level-number-position:left;
|
|
text-indent:-.25in;
|
|
font-family:Wingdings;}
|
|
@list l4
|
|
{mso-list-id:1836218059;
|
|
mso-list-template-ids:-1212253482;}
|
|
@list l4:level1
|
|
{mso-level-tab-stop:.5in;
|
|
mso-level-number-position:left;
|
|
text-indent:-.25in;
|
|
mso-ansi-font-size:10.0pt;}
|
|
@list l4:level2
|
|
{mso-level-number-format:bullet;
|
|
mso-level-text:o;
|
|
mso-level-tab-stop:1.0in;
|
|
mso-level-number-position:left;
|
|
text-indent:-.25in;
|
|
mso-ansi-font-size:10.0pt;
|
|
font-family:"Courier New";
|
|
mso-bidi-font-family:"Times New Roman";}
|
|
@list l4:level3
|
|
{mso-level-number-format:bullet;
|
|
mso-level-text:o;
|
|
mso-level-tab-stop:1.5in;
|
|
mso-level-number-position:left;
|
|
text-indent:-.25in;
|
|
mso-ansi-font-size:10.0pt;
|
|
font-family:"Courier New";}
|
|
@list l4:level4
|
|
{mso-level-number-format:bullet;
|
|
mso-level-text:\F0A7;
|
|
mso-level-tab-stop:2.0in;
|
|
mso-level-number-position:left;
|
|
text-indent:-.25in;
|
|
mso-ansi-font-size:10.0pt;
|
|
font-family:Wingdings;}
|
|
@list l4:level5
|
|
{mso-level-number-format:bullet;
|
|
mso-level-text:\F0A7;
|
|
mso-level-tab-stop:2.5in;
|
|
mso-level-number-position:left;
|
|
text-indent:-.25in;
|
|
mso-ansi-font-size:10.0pt;
|
|
font-family:Wingdings;}
|
|
@list l4:level6
|
|
{mso-level-number-format:bullet;
|
|
mso-level-text:\F0A7;
|
|
mso-level-tab-stop:3.0in;
|
|
mso-level-number-position:left;
|
|
text-indent:-.25in;
|
|
mso-ansi-font-size:10.0pt;
|
|
font-family:Wingdings;}
|
|
@list l4:level7
|
|
{mso-level-number-format:bullet;
|
|
mso-level-text:\F0A7;
|
|
mso-level-tab-stop:3.5in;
|
|
mso-level-number-position:left;
|
|
text-indent:-.25in;
|
|
mso-ansi-font-size:10.0pt;
|
|
font-family:Wingdings;}
|
|
@list l4:level8
|
|
{mso-level-number-format:bullet;
|
|
mso-level-text:\F0A7;
|
|
mso-level-tab-stop:4.0in;
|
|
mso-level-number-position:left;
|
|
text-indent:-.25in;
|
|
mso-ansi-font-size:10.0pt;
|
|
font-family:Wingdings;}
|
|
@list l4:level9
|
|
{mso-level-number-format:bullet;
|
|
mso-level-text:\F0A7;
|
|
mso-level-tab-stop:4.5in;
|
|
mso-level-number-position:left;
|
|
text-indent:-.25in;
|
|
mso-ansi-font-size:10.0pt;
|
|
font-family:Wingdings;}
|
|
@list l5
|
|
{mso-list-id:1875802485;
|
|
mso-list-template-ids:-1212253482;}
|
|
@list l5:level1
|
|
{mso-level-tab-stop:.5in;
|
|
mso-level-number-position:left;
|
|
text-indent:-.25in;
|
|
mso-ansi-font-size:10.0pt;}
|
|
@list l5:level2
|
|
{mso-level-number-format:bullet;
|
|
mso-level-text:o;
|
|
mso-level-tab-stop:1.0in;
|
|
mso-level-number-position:left;
|
|
text-indent:-.25in;
|
|
mso-ansi-font-size:10.0pt;
|
|
font-family:"Courier New";
|
|
mso-bidi-font-family:"Times New Roman";}
|
|
@list l5:level3
|
|
{mso-level-number-format:bullet;
|
|
mso-level-text:o;
|
|
mso-level-tab-stop:1.5in;
|
|
mso-level-number-position:left;
|
|
text-indent:-.25in;
|
|
mso-ansi-font-size:10.0pt;
|
|
font-family:"Courier New";}
|
|
@list l5:level4
|
|
{mso-level-number-format:bullet;
|
|
mso-level-text:\F0A7;
|
|
mso-level-tab-stop:2.0in;
|
|
mso-level-number-position:left;
|
|
text-indent:-.25in;
|
|
mso-ansi-font-size:10.0pt;
|
|
font-family:Wingdings;}
|
|
@list l5:level5
|
|
{mso-level-number-format:bullet;
|
|
mso-level-text:\F0A7;
|
|
mso-level-tab-stop:2.5in;
|
|
mso-level-number-position:left;
|
|
text-indent:-.25in;
|
|
mso-ansi-font-size:10.0pt;
|
|
font-family:Wingdings;}
|
|
@list l5:level6
|
|
{mso-level-number-format:bullet;
|
|
mso-level-text:\F0A7;
|
|
mso-level-tab-stop:3.0in;
|
|
mso-level-number-position:left;
|
|
text-indent:-.25in;
|
|
mso-ansi-font-size:10.0pt;
|
|
font-family:Wingdings;}
|
|
@list l5:level7
|
|
{mso-level-number-format:bullet;
|
|
mso-level-text:\F0A7;
|
|
mso-level-tab-stop:3.5in;
|
|
mso-level-number-position:left;
|
|
text-indent:-.25in;
|
|
mso-ansi-font-size:10.0pt;
|
|
font-family:Wingdings;}
|
|
@list l5:level8
|
|
{mso-level-number-format:bullet;
|
|
mso-level-text:\F0A7;
|
|
mso-level-tab-stop:4.0in;
|
|
mso-level-number-position:left;
|
|
text-indent:-.25in;
|
|
mso-ansi-font-size:10.0pt;
|
|
font-family:Wingdings;}
|
|
@list l5:level9
|
|
{mso-level-number-format:bullet;
|
|
mso-level-text:\F0A7;
|
|
mso-level-tab-stop:4.5in;
|
|
mso-level-number-position:left;
|
|
text-indent:-.25in;
|
|
mso-ansi-font-size:10.0pt;
|
|
font-family:Wingdings;}
|
|
ol
|
|
{margin-bottom:0in;}
|
|
ul
|
|
{margin-bottom:0in;}
|
|
-->
|
|
</style>
|
|
<!--[if gte mso 10]>
|
|
<style>
|
|
/* Style Definitions */
|
|
table.MsoNormalTable
|
|
{mso-style-name:"Table Normal";
|
|
mso-tstyle-rowband-size:0;
|
|
mso-tstyle-colband-size:0;
|
|
mso-style-noshow:yes;
|
|
mso-style-priority:99;
|
|
mso-style-parent:"";
|
|
mso-padding-alt:0in 5.4pt 0in 5.4pt;
|
|
mso-para-margin:0in;
|
|
mso-para-margin-bottom:.0001pt;
|
|
mso-pagination:widow-orphan;
|
|
font-size:10.0pt;
|
|
font-family:"Calibri","sans-serif";
|
|
mso-ascii-font-family:Calibri;
|
|
mso-ascii-theme-font:minor-latin;
|
|
mso-hansi-font-family:Calibri;
|
|
mso-hansi-theme-font:minor-latin;}
|
|
</style>
|
|
<![endif]--><!--[if gte mso 9]><xml>
|
|
<o:shapedefaults v:ext="edit" spidmax="1026"/>
|
|
</xml><![endif]--><!--[if gte mso 9]><xml>
|
|
<o:shapelayout v:ext="edit">
|
|
<o:idmap v:ext="edit" data="1"/>
|
|
</o:shapelayout></xml><![endif]-->
|
|
</head>
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<body lang=EN-US link=blue vlink=purple style='tab-interval:.5in'>
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<div class=WordSection1>
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<h1><o:p> </o:p></h1>
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<div style='mso-element:para-border-div;border:none;border-bottom:solid #4F81BD 1.0pt;
|
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mso-border-bottom-themecolor:accent1;padding:0in 0in 4.0pt 0in'>
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<p class=MsoTitle>JavaScript JSON convertors for Cytoscape 3.0 file formats</p>
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</div>
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<p class=MsoNormal><o:p> </o:p></p>
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<h1>Project Idea:</h1>
|
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<p class=MsoNormal><o:p> </o:p></p>
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<p class=MsoNormal>The project title is: JavaScript JSON convertors for
|
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Cytoscape 3.0 file formats.</p>
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<p class=MsoNormal><span style='mso-spacerun:yes'>�</span>The idea is based
|
|
upon suggested Idea 19: JavaScript JSON convertors for graph file formats, but I
|
|
would like to drop the word �graph� from it, because this project will support
|
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virtually all formats accepted by Cytoscape 3.0 .</p>
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<h1>Synopsis:</h1>
|
|
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<p class=MsoNormal><o:p> </o:p></p>
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<p class=MsoNormal>This project deals with the conversion of different graph
|
|
and other formats used in Cytoscape 3.0 to Json used in cytoscape.js and vice
|
|
versa. </p>
|
|
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<p class=MsoNormal>Cytoscape 3.0 accepts file formats like xgmml, graphml, gml,
|
|
nnf, sif, xls, sif, csv whereas cytoscape.js currently accepts only json
|
|
representations of the data. It is not an easy task to create json
|
|
representation of a required graph by hand. This is where this project comes
|
|
in. I will develop some converters using JavaScript which will automate this
|
|
generation of json representation.</p>
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<h1>Implementation details:</h1>
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|
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<p class=MsoNormal><o:p> </o:p></p>
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|
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<p class=MsoNormal>The Cytoscape 3.0 file formats that will be supported are:</p>
|
|
|
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<p class=MsoNormal>Xgmml, Graphml, Sif, Nnf, Gml (,Csv, Xlsx).</p>
|
|
|
|
<p class=MsoNormal>They are arranged according to their priority and so this is
|
|
the order in which their json converters will be implemented. The last two (in
|
|
bracket) will be kept as extras, meaning that they will be implemented only if
|
|
the project is finished well before the deadline (see the timeline for details)
|
|
.</p>
|
|
|
|
<p class=MsoNormal><span style='mso-no-proof:yes'><!--[if gte vml 1]><v:shapetype
|
|
id="_x0000_t75" coordsize="21600,21600" o:spt="75" o:preferrelative="t"
|
|
path="m@4@5l@4@11@9@11@9@5xe" filled="f" stroked="f">
|
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<v:stroke joinstyle="miter"/>
|
|
<v:formulas>
|
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<v:f eqn="if lineDrawn pixelLineWidth 0"/>
|
|
<v:f eqn="sum @0 1 0"/>
|
|
<v:f eqn="sum 0 0 @1"/>
|
|
<v:f eqn="prod @2 1 2"/>
|
|
<v:f eqn="prod @3 21600 pixelWidth"/>
|
|
<v:f eqn="prod @3 21600 pixelHeight"/>
|
|
<v:f eqn="sum @0 0 1"/>
|
|
<v:f eqn="prod @6 1 2"/>
|
|
<v:f eqn="prod @7 21600 pixelWidth"/>
|
|
<v:f eqn="sum @8 21600 0"/>
|
|
<v:f eqn="prod @7 21600 pixelHeight"/>
|
|
<v:f eqn="sum @10 21600 0"/>
|
|
</v:formulas>
|
|
<v:path o:extrusionok="f" gradientshapeok="t" o:connecttype="rect"/>
|
|
<o:lock v:ext="edit" aspectratio="t"/>
|
|
</v:shapetype><v:shape id="Picture_x0020_2" o:spid="_x0000_i1026" type="#_x0000_t75"
|
|
alt="Description: Description: Description: C:\Users\Abhas_2\Desktop\cyto\cyto_proposal.png"
|
|
style='width:468pt;height:312pt;visibility:visible;mso-wrap-style:square'>
|
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<v:imagedata src="cyto_proposal_draft_files/image001.png" o:title="cyto_proposal"/>
|
|
</v:shape><![endif]--><![if !vml]><img width=624 height=416
|
|
src="cyto_proposal_draft_files/image001.png"
|
|
alt="Description: Description: Description: C:\Users\Abhas_2\Desktop\cyto\cyto_proposal.png"
|
|
v:shapes="Picture_x0020_2"><![endif]></span></p>
|
|
|
|
<p class=MsoNormal>Now, this is how I plan to deal with each of them.</p>
|
|
|
|
<p class=MsoListParagraph style='text-indent:-.25in;mso-list:l2 level1 lfo2'><![if !supportLists]><span
|
|
style='mso-bidi-font-family:Calibri;mso-bidi-theme-font:minor-latin'><span
|
|
style='mso-list:Ignore'>1.<span style='font:7.0pt "Times New Roman"'>
|
|
</span></span></span><![endif]>Xgmml: This is the top priority format and hence
|
|
will be dealt with first. Xml parsers available in native javascript and jquery
|
|
will be used for parsing the xgmml file. Then some JavaScript code (using
|
|
looping and if needed, regular expressions) will deal with the parsed xml file
|
|
to convert them correctly into javascript variables and objects. Finally, they
|
|
can be used to generate its json representation. (Maybe, take some inspiration
|
|
from this library in Gremlin (written in java): <a
|
|
href="https://github.com/tinkerpop/blueprints/wiki/GraphSON-Reader-and-Writer-Library">https://github.com/tinkerpop/blueprints/wiki/GraphSON-Reader-and-Writer-Library</a>
|
|
)</p>
|
|
|
|
<p class=MsoNormal style='margin-left:.5in'>This requires some separate
|
|
functions which can:</p>
|
|
|
|
<p class=MsoListParagraphCxSpFirst style='margin-left:1.0in;mso-add-space:auto;
|
|
text-indent:-.25in;mso-list:l1 level1 lfo4'><![if !supportLists]><span
|
|
style='font-family:Symbol;mso-fareast-font-family:Symbol;mso-bidi-font-family:
|
|
Symbol'><span style='mso-list:Ignore'>�<span style='font:7.0pt "Times New Roman"'>
|
|
</span></span></span><![endif]>convert parsed xml to jS variables and objects</p>
|
|
|
|
<p class=MsoListParagraphCxSpMiddle style='margin-left:1.0in;mso-add-space:
|
|
auto;text-indent:-.25in;mso-list:l1 level1 lfo4'><![if !supportLists]><span
|
|
style='font-family:Symbol;mso-fareast-font-family:Symbol;mso-bidi-font-family:
|
|
Symbol'><span style='mso-list:Ignore'>�<span style='font:7.0pt "Times New Roman"'>
|
|
</span></span></span><![endif]>create xml from given jS variables and objects</p>
|
|
|
|
<p class=MsoListParagraphCxSpMiddle style='margin-left:1.0in;mso-add-space:
|
|
auto;text-indent:-.25in;mso-list:l1 level1 lfo4'><![if !supportLists]><span
|
|
style='font-family:Symbol;mso-fareast-font-family:Symbol;mso-bidi-font-family:
|
|
Symbol'><span style='mso-list:Ignore'>�<span style='font:7.0pt "Times New Roman"'>
|
|
</span></span></span><![endif]>save given jS variables and objects as json</p>
|
|
|
|
<p class=MsoListParagraphCxSpLast style='margin-left:1.0in;mso-add-space:auto;
|
|
text-indent:-.25in;mso-list:l1 level1 lfo4'><![if !supportLists]><span
|
|
style='font-family:Symbol;mso-fareast-font-family:Symbol;mso-bidi-font-family:
|
|
Symbol'><span style='mso-list:Ignore'>�<span style='font:7.0pt "Times New Roman"'>
|
|
</span></span></span><![endif]>convert json into jS variables and objects</p>
|
|
|
|
<p class=MsoNormal style='margin-left:.5in'>Guidelines for the conversion:
|
|
<Note: See Possible hurdle 1></p>
|
|
|
|
<p class=MsoListParagraphCxSpFirst style='margin-left:1.0in;mso-add-space:auto;
|
|
text-indent:-.25in;mso-list:l0 level2 lfo6'><![if !supportLists]><span
|
|
style='mso-bidi-font-family:Calibri;mso-bidi-theme-font:minor-latin'><span
|
|
style='mso-list:Ignore'>1.<span style='font:7.0pt "Times New Roman"'>
|
|
</span></span></span><![endif]>Whether it is a �node� or a �edge� is
|
|
represented by �group� in json. All its data is stored in the �data� object.</p>
|
|
|
|
<p class=MsoListParagraphCxSpMiddle style='margin-left:1.0in;mso-add-space:
|
|
auto;text-indent:-.25in;mso-list:l0 level2 lfo6'><![if !supportLists]><span
|
|
style='mso-bidi-font-family:Calibri;mso-bidi-theme-font:minor-latin'><span
|
|
style='mso-list:Ignore'>2.<span style='font:7.0pt "Times New Roman"'>
|
|
</span></span></span><![endif]>All the attributes of �node� or �edge� are
|
|
converted to strings in json.</p>
|
|
|
|
<p class=MsoListParagraphCxSpMiddle style='margin-left:1.0in;mso-add-space:
|
|
auto;text-indent:-.25in;mso-list:l0 level2 lfo6'><![if !supportLists]><span
|
|
style='mso-bidi-font-family:Calibri;mso-bidi-theme-font:minor-latin'><span
|
|
style='mso-list:Ignore'>3.<span style='font:7.0pt "Times New Roman"'>
|
|
</span></span></span><![endif]>All the <att> tags of nodes/edges which
|
|
are of type �real� are converted into numbers, �list� and �string� into their
|
|
json counterparts.</p>
|
|
|
|
<p class=MsoListParagraphCxSpMiddle style='margin-left:1.0in;mso-add-space:
|
|
auto;text-indent:-.25in;mso-list:l0 level2 lfo6'><![if !supportLists]><span
|
|
style='mso-bidi-font-family:Calibri;mso-bidi-theme-font:minor-latin'><span
|
|
style='mso-list:Ignore'>4.<span style='font:7.0pt "Times New Roman"'>
|
|
</span></span></span><![endif]>The <att> tags without a �value� attribute
|
|
are considered as objects and its sub-tags and attributes are considered as properties
|
|
of that object. These sub-tags and attributes are then converted in accordance
|
|
with the previous rules.</p>
|
|
|
|
<p class=MsoListParagraphCxSpLast style='margin-left:1.0in;mso-add-space:auto;
|
|
text-indent:-.25in;mso-list:l0 level2 lfo6'><![if !supportLists]><span
|
|
style='mso-bidi-font-family:Calibri;mso-bidi-theme-font:minor-latin'><span
|
|
style='mso-list:Ignore'>5.<span style='font:7.0pt "Times New Roman"'>
|
|
</span></span></span><![endif]>The <graphics> tag is considered as a json
|
|
object named �graphics�. Its sub-tags and attributes are then converted in
|
|
accordance with the previous rules.</p>
|
|
|
|
<p class=MsoNormal style='margin-left:.5in'>Here�s some side-by-side comparison
|
|
of xgmml format and its corresponding json form:</p>
|
|
|
|
<p class=MsoNormal style='margin-left:.5in'><span style='font-size:14.0pt;
|
|
line-height:115%;background:aqua;mso-highlight:aqua'>XGMML</span><span
|
|
style='font-size:14.0pt;line-height:115%'> (</span><a
|
|
href="https://github.com/bendtherules/GSOC_13/blob/master/Proposal/preview.xgmml"><span
|
|
style='font-size:14.0pt;line-height:115%'>https://github.com/bendtherules/GSOC_13/blob/master/Proposal/preview.xgmml</span></a><span
|
|
style='font-size:14.0pt;line-height:115%'> )<o:p></o:p></span></p>
|
|
|
|
<p class=MsoNormal style='margin-left:.5in'><span style='font-family:"Arial","sans-serif"'><node
|
|
id="-331" label="YBR043C"><o:p></o:p></span></p>
|
|
|
|
<p class=MsoNormal style='margin-left:.5in'><span style='font-family:"Arial","sans-serif"'><span
|
|
style='mso-spacerun:yes'>��� </span><att label="gal1RGexp"
|
|
name="gal1RGexp" value="0.454" type="real"/><o:p></o:p></span></p>
|
|
|
|
<p class=MsoNormal style='margin-left:.5in'><span style='font-family:"Arial","sans-serif"'><span
|
|
style='mso-spacerun:yes'>��� </span><att label="GO Cellular
|
|
Component" name="GO Cellular Component"
|
|
type="list"><o:p></o:p></span></p>
|
|
|
|
<p class=MsoNormal style='margin-left:.5in'><span style='font-family:"Arial","sans-serif"'><span
|
|
style='mso-spacerun:yes'>������� </span><att value="cell"
|
|
type="string"/><o:p></o:p></span></p>
|
|
|
|
<p class=MsoNormal style='margin-left:.5in'><span style='font-family:"Arial","sans-serif"'><span
|
|
style='mso-spacerun:yes'>������� </span><att value="cell part"
|
|
type="string"/><o:p></o:p></span></p>
|
|
|
|
<p class=MsoNormal style='margin-left:.5in'><span style='font-family:"Arial","sans-serif"'><span
|
|
style='mso-spacerun:yes'>��� </span></att><o:p></o:p></span></p>
|
|
|
|
<p class=MsoNormal style='margin-left:.5in'><span style='font-family:"Arial","sans-serif"'><span
|
|
style='mso-spacerun:yes'>��� </span><graphics width="1"
|
|
fill="#fcfffd"><o:p></o:p></span></p>
|
|
|
|
<p class=MsoNormal style='margin-left:.5in'><span style='font-family:"Arial","sans-serif"'><span
|
|
style='mso-spacerun:yes'>������� </span><att
|
|
name="cytoscapeNodeGraphicsAttributes"><o:p></o:p></span></p>
|
|
|
|
<p class=MsoNormal style='margin-left:.5in'><span style='font-family:"Arial","sans-serif"'><span
|
|
style='mso-spacerun:yes'>����������� </span><att
|
|
name="nodeTransparency" value="1.0"/><o:p></o:p></span></p>
|
|
|
|
<p class=MsoNormal style='margin-left:.5in'><span style='font-family:"Arial","sans-serif"'><span
|
|
style='mso-spacerun:yes'>����������� </span><att
|
|
name="nodeLabelFont" value="Default-0-12"/><o:p></o:p></span></p>
|
|
|
|
<p class=MsoNormal style='margin-left:.5in'><span style='font-family:"Arial","sans-serif"'><span
|
|
style='mso-spacerun:yes'>������� </span></att><o:p></o:p></span></p>
|
|
|
|
<p class=MsoNormal style='margin-left:.5in'><span style='font-family:"Arial","sans-serif"'><span
|
|
style='mso-spacerun:yes'>��� </span></graphics><o:p></o:p></span></p>
|
|
|
|
<p class=MsoNormal style='margin-left:.5in'><span style='font-family:"Arial","sans-serif"'></node><o:p></o:p></span></p>
|
|
|
|
<p class=MsoNormal style='margin-left:.5in'><span style='font-size:14.0pt;
|
|
line-height:115%;font-family:"Arial","sans-serif";background:aqua;mso-highlight:
|
|
aqua'>JSON</span><span style='font-size:14.0pt;line-height:115%;font-family:
|
|
"Arial","sans-serif"'> (</span><a
|
|
href="https://github.com/bendtherules/GSOC_13/blob/master/Proposal/preview_json_of_xgmml.json"><span
|
|
style='font-size:14.0pt;line-height:115%;font-family:"Arial","sans-serif"'>https://github.com/bendtherules/GSOC_13/blob/master/Proposal/preview_json_of_xgmml.json</span></a><span
|
|
style='font-size:14.0pt;line-height:115%;font-family:"Arial","sans-serif"'> )<o:p></o:p></span></p>
|
|
|
|
<p class=MsoNormal style='margin-left:.5in'><span style='font-family:"Arial","sans-serif"'>[<o:p></o:p></span></p>
|
|
|
|
<p class=MsoNormal style='margin-left:.5in'><span style='font-family:"Arial","sans-serif"'><span
|
|
style='mso-spacerun:yes'>��� </span>{ �data�: {<o:p></o:p></span></p>
|
|
|
|
<p class=MsoNormal style='margin-left:.5in'><span style='font-family:"Arial","sans-serif"'><span
|
|
style='mso-spacerun:yes'>���������������
|
|
</span>"id":"YKR026C",<o:p></o:p></span></p>
|
|
|
|
<p class=MsoNormal style='margin-left:.5in'><span style='font-family:"Arial","sans-serif"'><span
|
|
style='mso-spacerun:yes'>���������������
|
|
</span>"label":"YBR043C",<o:p></o:p></span></p>
|
|
|
|
<p class=MsoNormal style='margin-left:.5in'><span style='font-family:"Arial","sans-serif"'><span
|
|
style='mso-spacerun:yes'>��������������� </span>"gal1RGexp":0.454,<o:p></o:p></span></p>
|
|
|
|
<p class=MsoNormal style='margin-left:.5in'><span style='font-family:"Arial","sans-serif"'><span
|
|
style='mso-spacerun:yes'>��������������� </span>"GO Cellular
|
|
Component":["cell", "cell part"],<o:p></o:p></span></p>
|
|
|
|
<p class=MsoNormal style='margin-left:.5in'><span style='font-family:"Arial","sans-serif"'><span
|
|
style='mso-spacerun:yes'>���������������
|
|
</span>"graphics":{"width":"1",<o:p></o:p></span></p>
|
|
|
|
<p class=MsoNormal style='margin-left:.5in'><span style='font-family:"Arial","sans-serif"'><span
|
|
style='mso-spacerun:yes'>���������������������������
|
|
</span>"fill":"#fcfffd",<o:p></o:p></span></p>
|
|
|
|
<p class=MsoNormal style='margin-left:.5in'><span style='font-family:"Arial","sans-serif"'><span
|
|
style='mso-spacerun:yes'>�� </span><span
|
|
style='mso-spacerun:yes'>�������������������������</span>"cytoscapeNodeGraphicsAttributes":{<o:p></o:p></span></p>
|
|
|
|
<p class=MsoNormal style='margin-left:.5in'><span style='font-family:"Arial","sans-serif"'><span
|
|
style='mso-spacerun:yes'>���������������������������������������������������������������
|
|
</span>"nodeTransparency":"1.0",<o:p></o:p></span></p>
|
|
|
|
<p class=MsoNormal style='margin-left:.5in'><span style='font-family:"Arial","sans-serif"'><span
|
|
style='mso-spacerun:yes'>���������������������������������������������������������������
|
|
</span>"nodeLabelFont":"Default-0-12"<o:p></o:p></span></p>
|
|
|
|
<p class=MsoNormal style='margin-left:.5in'><span style='font-family:"Arial","sans-serif"'><span
|
|
style='mso-spacerun:yes'>��������� </span><span
|
|
style='mso-spacerun:yes'>����������������������������������������������������</span>}<o:p></o:p></span></p>
|
|
|
|
<p class=MsoNormal style='margin-left:.5in'><span style='font-family:"Arial","sans-serif"'><span
|
|
style='mso-spacerun:yes'>��������������������������� </span>}<o:p></o:p></span></p>
|
|
|
|
<p class=MsoNormal style='margin-left:.5in'><span style='font-family:"Arial","sans-serif"'><span
|
|
style='mso-spacerun:yes'>����������� </span>},<o:p></o:p></span></p>
|
|
|
|
<p class=MsoNormal style='margin-left:.5in'><span style='font-family:"Arial","sans-serif"'><span
|
|
style='mso-spacerun:yes'>����� </span>"group": "nodes"<o:p></o:p></span></p>
|
|
|
|
<p class=MsoNormal style='margin-left:.5in'><span style='font-family:"Arial","sans-serif"'><span
|
|
style='mso-spacerun:yes'>��� </span>}<o:p></o:p></span></p>
|
|
|
|
<p class=MsoNormal style='margin-left:.5in'><span style='font-family:"Arial","sans-serif"'>]<o:p></o:p></span></p>
|
|
|
|
<p class=MsoNormal style='margin-left:.5in'><span style='font-family:"Arial","sans-serif"'><o:p> </o:p></span></p>
|
|
|
|
<p class=MsoListParagraph style='text-indent:-.25in;mso-list:l0 level1 lfo6'><![if !supportLists]><span
|
|
style='mso-bidi-font-family:Calibri;mso-bidi-theme-font:minor-latin'><span
|
|
style='mso-list:Ignore'>2.<span style='font:7.0pt "Times New Roman"'>
|
|
</span></span></span><![endif]>Graphml:<span style='mso-spacerun:yes'>�
|
|
</span>Graphml is also a xml-based format, so the implementation process is
|
|
same as that of the previous one. Only the code will be different to take care
|
|
of the syntax difference of these formats.</p>
|
|
|
|
<p class=MsoNormal style='margin-left:.5in'>Conversion guideline:</p>
|
|
|
|
<p class=MsoListParagraphCxSpFirst style='margin-left:1.0in;mso-add-space:auto;
|
|
text-indent:-.25in;mso-list:l0 level2 lfo6'><![if !supportLists]><span
|
|
style='mso-bidi-font-family:Calibri;mso-bidi-theme-font:minor-latin'><span
|
|
style='mso-list:Ignore'>1.<span style='font:7.0pt "Times New Roman"'>
|
|
</span></span></span><![endif]>Make use of the graphml � attribute values ( <a
|
|
href="http://graphml.graphdrawing.org/primer/graphml-primer.html#AttributesValues">http://graphml.graphdrawing.org/primer/graphml-primer.html#AttributesValues</a>
|
|
) to know the attribute type and the default values, if present.</p>
|
|
|
|
<p class=MsoListParagraphCxSpMiddle style='margin-left:1.0in;mso-add-space:
|
|
auto;text-indent:-.25in;mso-list:l0 level2 lfo6'><![if !supportLists]><span
|
|
style='mso-bidi-font-family:Calibri;mso-bidi-theme-font:minor-latin'><span
|
|
style='mso-list:Ignore'>2.<span style='font:7.0pt "Times New Roman"'>
|
|
</span></span></span><![endif]>All the<span style='mso-spacerun:yes'>�
|
|
</span>�key� attributes in the <data> tags will be converted into json
|
|
data of type �attr.type� (which are provided as graphml � attribute values )</p>
|
|
|
|
<p class=MsoListParagraphCxSpMiddle style='margin-left:1.0in;mso-add-space:
|
|
auto;text-indent:-.25in;mso-list:l0 level2 lfo6'><![if !supportLists]><span
|
|
style='mso-bidi-font-family:Calibri;mso-bidi-theme-font:minor-latin'><span
|
|
style='mso-list:Ignore'>3.<span style='font:7.0pt "Times New Roman"'>
|
|
</span></span></span><![endif]>Convert complex types ( <a
|
|
href="http://graphml.graphdrawing.org/primer/graphml-primer.html#Complex">http://graphml.graphdrawing.org/primer/graphml-primer.html#Complex</a>
|
|
) into objects.</p>
|
|
|
|
<p class=MsoListParagraphCxSpMiddle style='margin-left:1.0in;mso-add-space:
|
|
auto;text-indent:-.25in;mso-list:l0 level2 lfo6'><![if !supportLists]><span
|
|
style='mso-bidi-font-family:Calibri;mso-bidi-theme-font:minor-latin'><span
|
|
style='mso-list:Ignore'>4.<span style='font:7.0pt "Times New Roman"'>
|
|
</span></span></span><![endif]>Support nested graphs (<a
|
|
href="http://graphml.graphdrawing.org/primer/graphml-primer.html#Nested">http://graphml.graphdrawing.org/primer/graphml-primer.html#Nested</a>
|
|
) with the help of parent variable. (Might be a little complex, but surely
|
|
do-able.)</p>
|
|
|
|
<p class=MsoListParagraphCxSpMiddle><o:p> </o:p></p>
|
|
|
|
<p class=MsoListParagraphCxSpMiddle>[Side-by-side examples are not provided for
|
|
this one, as they are pretty easy to understand. ]</p>
|
|
|
|
<p class=MsoListParagraphCxSpMiddle><o:p> </o:p></p>
|
|
|
|
<p class=MsoListParagraphCxSpMiddle><o:p> </o:p></p>
|
|
|
|
<p class=MsoListParagraphCxSpMiddle>Before I move on to the other ones, here is
|
|
a small chart for reference:</p>
|
|
|
|
<p class=MsoListParagraphCxSpLast><span style='mso-no-proof:yes'><!--[if gte vml 1]><v:shape
|
|
id="Picture_x0020_3" o:spid="_x0000_i1025" type="#_x0000_t75" alt="Description: Description: Description: C:\Users\Abhas_2\Desktop\cyto\cyto_implementation.png"
|
|
style='width:591.75pt;height:345pt;visibility:visible;mso-wrap-style:square'>
|
|
<v:imagedata src="cyto_proposal_draft_files/image002.png" o:title="cyto_implementation"/>
|
|
</v:shape><![endif]--><![if !vml]><img border=0 width=789 height=460
|
|
src="cyto_proposal_draft_files/image002.png"
|
|
alt="Description: Description: Description: C:\Users\Abhas_2\Desktop\cyto\cyto_implementation.png"
|
|
v:shapes="Picture_x0020_3"><![endif]></span></p>
|
|
|
|
<p class=MsoNormal><o:p> </o:p></p>
|
|
|
|
<p class=MsoListParagraph style='text-indent:-.25in;mso-list:l0 level1 lfo6'><![if !supportLists]><span
|
|
style='mso-bidi-font-family:Calibri;mso-bidi-theme-font:minor-latin'><span
|
|
style='mso-list:Ignore'>3.<span style='font:7.0pt "Times New Roman"'>
|
|
</span></span></span><![endif]>Sif and Nnf: Very simple jS code needs to be written
|
|
to take care of these file formats. There is already a python-based
|
|
implementation of these converters (written by me) available at <a
|
|
href="https://github.com/bendtherules/GSOC_13/tree/master/nnf_and_sif_to_json_py%20%20">https://github.com/bendtherules/GSOC_13/tree/master/nnf_and_sif_to_json_py
|
|
</a><span style='mso-spacerun:yes'>�</span>. <span style='background:lightgrey;
|
|
mso-highlight:lightgrey'>Unlike the python implementation, network information
|
|
in Nnf will be taken care of (stored in the �parent� variable in json).</span></p>
|
|
|
|
<p class=MsoNormal style='margin-left:.25in'><o:p> </o:p></p>
|
|
|
|
<p class=MsoListParagraph style='text-indent:-.25in;mso-list:l0 level1 lfo6'><![if !supportLists]><span
|
|
style='mso-bidi-font-family:Calibri;mso-bidi-theme-font:minor-latin'><span
|
|
style='mso-list:Ignore'>4.<span style='font:7.0pt "Times New Roman"'>
|
|
</span></span></span><![endif]>GML:<span style='mso-spacerun:yes'>� </span>A
|
|
custom-made parser needs to be built based on regular expressions (native js or
|
|
possibly using xregexp library <a href="http://xregexp.com/">http://xregexp.com/</a>
|
|
). The rest of the plan is the same as that of xgmml, only this new parser will
|
|
be used.<span style='mso-spacerun:yes'>� </span>As XGMML is the successor of
|
|
GML, the conversion guidelines used in xgmml should suffice (only the idea of
|
|
tags are not present here, everything is separated by space/tab).</p>
|
|
|
|
<p class=MsoNormal style='margin-left:.5in'>Side-by-side example:</p>
|
|
|
|
<p class=MsoNormal style='margin-left:.5in'><span style='font-size:14.0pt;
|
|
line-height:115%;background:aqua;mso-highlight:aqua'>GML</span><span
|
|
style='font-size:14.0pt;line-height:115%'> ( <a
|
|
href="https://github.com/bendtherules/GSOC_13/blob/master/Proposal/preview.gml">https://github.com/bendtherules/GSOC_13/blob/master/Proposal/preview.gml</a>
|
|
)<o:p></o:p></span></p>
|
|
|
|
<p class=MsoNormal style='margin-left:.5in'><span style='font-family:"Arial","sans-serif"'>node<o:p></o:p></span></p>
|
|
|
|
<p class=MsoNormal style='margin-left:.5in'><span style='font-family:"Arial","sans-serif"'>[<o:p></o:p></span></p>
|
|
|
|
<p class=MsoNormal style='margin-left:.5in'><span style='font-family:"Arial","sans-serif"'><span
|
|
style='mso-tab-count:1'>����������� </span>id<span style='mso-tab-count:1'>�������� </span>0<o:p></o:p></span></p>
|
|
|
|
<p class=MsoNormal style='margin-left:.5in'><span style='font-family:"Arial","sans-serif"'><span
|
|
style='mso-tab-count:1'>����������� </span>label<span style='mso-tab-count:
|
|
1'>���� </span>"YKR026C"<o:p></o:p></span></p>
|
|
|
|
<p class=MsoNormal style='margin-left:.5in'><span style='font-family:"Arial","sans-serif"'><span
|
|
style='mso-tab-count:1'>����������� </span>graphics<o:p></o:p></span></p>
|
|
|
|
<p class=MsoNormal style='margin-left:.5in'><span style='font-family:"Arial","sans-serif"'><span
|
|
style='mso-tab-count:1'>����������� </span>[<o:p></o:p></span></p>
|
|
|
|
<p class=MsoNormal style='margin-left:.5in'><span style='font-family:"Arial","sans-serif"'><span
|
|
style='mso-tab-count:2'>����������������������� </span>x<span style='mso-tab-count:
|
|
1'>��������� </span>1916.0<o:p></o:p></span></p>
|
|
|
|
<p class=MsoNormal style='margin-left:.5in'><span style='font-family:"Arial","sans-serif"'><span
|
|
style='mso-tab-count:2'>����������������������� </span>type<span
|
|
style='mso-tab-count:1'>���� </span>"ellipse"<o:p></o:p></span></p>
|
|
|
|
<p class=MsoNormal style='margin-left:.5in'><span style='font-family:"Arial","sans-serif"'><span
|
|
style='mso-tab-count:2'>����������������������� </span>fill<span
|
|
style='mso-tab-count:1'>�������� </span>"#E1E1E1"<o:p></o:p></span></p>
|
|
|
|
<p class=MsoNormal style='margin-left:.5in'><span style='font-family:"Arial","sans-serif"'><span
|
|
style='mso-tab-count:1'>����������� </span>]<o:p></o:p></span></p>
|
|
|
|
<p class=MsoNormal style='margin-left:.5in'><span style='font-family:"Arial","sans-serif"'>]<o:p></o:p></span></p>
|
|
|
|
<p class=MsoNormal style='margin-left:.5in'><span style='font-family:"Arial","sans-serif"'><o:p> </o:p></span></p>
|
|
|
|
<p class=MsoNormal style='margin-left:.5in'><span style='font-size:14.0pt;
|
|
line-height:115%;mso-bidi-font-family:Arial;background:aqua;mso-highlight:aqua'>JSON</span><span
|
|
style='font-size:14.0pt;line-height:115%;mso-bidi-font-family:Arial'> (</span><a
|
|
href="https://github.com/bendtherules/GSOC_13/blob/master/Proposal/preview_json_of_gml.json"><span
|
|
style='font-size:14.0pt;line-height:115%;mso-bidi-font-family:Arial'>https://github.com/bendtherules/GSOC_13/blob/master/Proposal/preview_json_of_gml.json</span></a><span
|
|
style='font-size:14.0pt;line-height:115%;mso-bidi-font-family:Arial'> )<o:p></o:p></span></p>
|
|
|
|
<p class=MsoNormal style='margin-left:.5in'><span style='font-family:"Arial","sans-serif"'>[<o:p></o:p></span></p>
|
|
|
|
<p class=MsoNormal style='margin-left:.5in'><span style='font-family:"Arial","sans-serif"'><span
|
|
style='mso-spacerun:yes'>��� </span>{ data: {<o:p></o:p></span></p>
|
|
|
|
<p class=MsoNormal style='margin-left:.5in'><span style='font-family:"Arial","sans-serif"'><span
|
|
style='mso-spacerun:yes'>��������������� </span>"id":0,<o:p></o:p></span></p>
|
|
|
|
<p class=MsoNormal style='margin-left:.5in'><span style='font-family:"Arial","sans-serif"'><span
|
|
style='mso-spacerun:yes'>���������������
|
|
</span>"label":"YKR026C",<o:p></o:p></span></p>
|
|
|
|
<p class=MsoNormal style='margin-left:.5in'><span style='font-family:"Arial","sans-serif"'><span
|
|
style='mso-spacerun:yes'>���������������
|
|
</span>"graphics":{"x":1916.0,<o:p></o:p></span></p>
|
|
|
|
<p class=MsoNormal style='margin-left:.5in'><span style='font-family:"Arial","sans-serif"'><span
|
|
style='mso-spacerun:yes'>��������������������������� </span>"type":"ellipse",<o:p></o:p></span></p>
|
|
|
|
<p class=MsoNormal style='margin-left:.5in'><span style='font-family:"Arial","sans-serif"'><span
|
|
style='mso-spacerun:yes'>���������������������������
|
|
</span>"fill":"#E1E1E1",<o:p></o:p></span></p>
|
|
|
|
<p class=MsoNormal style='margin-left:.5in'><span style='font-family:"Arial","sans-serif"'><span
|
|
style='mso-spacerun:yes'>��������������������������� </span>}<o:p></o:p></span></p>
|
|
|
|
<p class=MsoNormal style='margin-left:.5in'><span style='font-family:"Arial","sans-serif"'><span
|
|
style='mso-spacerun:yes'>����������� </span>},<o:p></o:p></span></p>
|
|
|
|
<p class=MsoNormal style='margin-left:.5in'><span style='font-family:"Arial","sans-serif"'><span
|
|
style='mso-spacerun:yes'>����� </span>"group": "nodes"<o:p></o:p></span></p>
|
|
|
|
<p class=MsoNormal style='margin-left:.5in'><span style='font-family:"Arial","sans-serif"'><span
|
|
style='mso-spacerun:yes'>��� </span>}<o:p></o:p></span></p>
|
|
|
|
<p class=MsoNormal style='margin-left:.5in'><span style='font-family:"Arial","sans-serif"'>]<o:p></o:p></span></p>
|
|
|
|
<p class=MsoNormal style='margin-left:.5in'><span style='font-family:"Arial","sans-serif"'><o:p> </o:p></span></p>
|
|
|
|
<p class=MsoNormal>Few words on the extras:</p>
|
|
|
|
<p class=MsoNormal>These extras will be done only if there is ample time left after
|
|
the completion of the whole project, so there is no way that they will harm the
|
|
main project. I am aware that new GSOC applicants like me tend to propose a lot
|
|
more than they can actually complete, so I have tried not to fall in that trap.
|
|
But these extras are here, because I plan to do them in the future, within or
|
|
after GSOC.<span style='mso-spacerun:yes'>� </span>Also, as a side note, in
|
|
future, I wish to release this codes as a separate jS library for converting
|
|
customized-xml formats into json (I hope my mentoring org will allow this).</p>
|
|
|
|
<p class=MsoListParagraphCxSpFirst style='text-indent:-.25in;mso-list:l0 level1 lfo6'><![if !supportLists]><span
|
|
style='mso-bidi-font-family:Calibri;mso-bidi-theme-font:minor-latin'><span
|
|
style='mso-list:Ignore'>5.<span style='font:7.0pt "Times New Roman"'>
|
|
</span></span></span><![endif]>Csv:<span style='mso-spacerun:yes'>� </span>Use
|
|
any well-documented csv parser and rest is the same.</p>
|
|
|
|
<p class=MsoListParagraphCxSpLast style='text-indent:-.25in;mso-list:l0 level1 lfo6'><![if !supportLists]><span
|
|
style='mso-bidi-font-family:Calibri;mso-bidi-theme-font:minor-latin'><span
|
|
style='mso-list:Ignore'>6.<span style='font:7.0pt "Times New Roman"'>
|
|
</span></span></span><![endif]>Xlsx: <span style='color:red;background:lightgrey;
|
|
mso-highlight:lightgrey'>**Potential License Issue**</span><span
|
|
style='color:red'> </span>This is the most challenging part. I wouldn�t have
|
|
tried this if there was no cross-browser external library to read and write
|
|
xlsx format. But thankfully and quite surprisingly, there is one called Xlsx.js
|
|
<a href="https://github.com/stephen-hardy/xlsx.js">https://github.com/stephen-hardy/xlsx.js</a>
|
|
. I am not much sure if I can pull off this part, but I am still including this
|
|
in the proposal mostly for my inspiration than anything else. Also, I know that
|
|
the Cytoscape project originally supported .xls, but I think its best kept to
|
|
Microsoft Excel for converting .xls into .xlsx .</p>
|
|
|
|
<p class=MsoNormal><o:p> </o:p></p>
|
|
|
|
<h1>Timeline:</h1>
|
|
|
|
<p class=MsoNormal><o:p> </o:p></p>
|
|
|
|
<p class=MsoListParagraphCxSpFirst style='text-indent:-.25in;mso-list:l4 level1 lfo8;
|
|
tab-stops:list .5in'><![if !supportLists]><span style='font-size:10.0pt;
|
|
mso-bidi-font-size:11.0pt;line-height:115%;mso-bidi-font-family:Calibri;
|
|
mso-bidi-theme-font:minor-latin'><span style='mso-list:Ignore'>1.<span
|
|
style='font:7.0pt "Times New Roman"'> </span></span></span><![endif]>Before
|
|
June 17 : </p>
|
|
|
|
<p class=MsoListParagraphCxSpMiddle style='margin-left:1.0in;mso-add-space:
|
|
auto;text-indent:-.25in;mso-list:l4 level2 lfo8;tab-stops:list 1.0in'><![if !supportLists]><span
|
|
style='font-size:10.0pt;mso-bidi-font-size:11.0pt;line-height:115%;font-family:
|
|
"Courier New";mso-fareast-font-family:"Courier New"'><span style='mso-list:
|
|
Ignore'>o<span style='font:7.0pt "Times New Roman"'> </span></span></span><![endif]>Learn
|
|
more about:</p>
|
|
|
|
<p class=MsoListParagraphCxSpMiddle style='margin-left:1.5in;mso-add-space:
|
|
auto;text-indent:-.25in;mso-list:l4 level3 lfo8;tab-stops:list 1.5in'><![if !supportLists]><span
|
|
style='font-size:10.0pt;mso-bidi-font-size:11.0pt;line-height:115%;font-family:
|
|
"Courier New";mso-fareast-font-family:"Courier New"'><span style='mso-list:
|
|
Ignore'>o<span style='font:7.0pt "Times New Roman"'> </span></span></span><![endif]><span
|
|
style='mso-spacerun:yes'>���</span>Jquery, xregexp, csv-parser, json, xlsx.js
|
|
and the graph formats.</p>
|
|
|
|
<p class=MsoListParagraphCxSpMiddle style='margin-left:1.0in;mso-add-space:
|
|
auto;text-indent:-.25in;mso-list:l4 level2 lfo8;tab-stops:list 1.0in'><![if !supportLists]><span
|
|
style='font-size:10.0pt;mso-bidi-font-size:11.0pt;line-height:115%;font-family:
|
|
"Courier New";mso-fareast-font-family:"Courier New"'><span style='mso-list:
|
|
Ignore'>o<span style='font:7.0pt "Times New Roman"'> </span></span></span><![endif]>Set
|
|
up development environment</p>
|
|
|
|
<p class=MsoListParagraphCxSpMiddle style='text-indent:-.25in;mso-list:l4 level1 lfo8;
|
|
tab-stops:list .5in'><![if !supportLists]><span style='font-size:10.0pt;
|
|
mso-bidi-font-size:11.0pt;line-height:115%;mso-bidi-font-family:Calibri;
|
|
mso-bidi-theme-font:minor-latin'><span style='mso-list:Ignore'>2.<span
|
|
style='font:7.0pt "Times New Roman"'> </span></span></span><![endif]>June
|
|
17 � July 6 (18 days): Implement xgmml converter</p>
|
|
|
|
<p class=MsoListParagraphCxSpMiddle style='margin-left:1.0in;mso-add-space:
|
|
auto;text-indent:-.25in;mso-list:l4 level2 lfo8;tab-stops:list 1.0in'><![if !supportLists]><span
|
|
style='font-size:10.0pt;mso-bidi-font-size:11.0pt;line-height:115%;font-family:
|
|
"Courier New";mso-fareast-font-family:"Courier New"'><span style='mso-list:
|
|
Ignore'>o<span style='font:7.0pt "Times New Roman"'> </span></span></span><![endif]>June
|
|
17 � June 29 (12 days): Implement xgmml parser</p>
|
|
|
|
<p class=MsoListParagraphCxSpMiddle style='margin-left:1.0in;mso-add-space:
|
|
auto;text-indent:-.25in;mso-list:l4 level2 lfo8;tab-stops:list 1.0in'><![if !supportLists]><span
|
|
style='font-size:10.0pt;mso-bidi-font-size:11.0pt;line-height:115%;font-family:
|
|
"Courier New";mso-fareast-font-family:"Courier New"'><span style='mso-list:
|
|
Ignore'>o<span style='font:7.0pt "Times New Roman"'> </span></span></span><![endif]>July
|
|
30 � July 5 (6 days): Rest of the converter</p>
|
|
|
|
<p class=MsoListParagraphCxSpMiddle style='text-indent:-.25in;mso-list:l4 level1 lfo8;
|
|
tab-stops:list .5in'><![if !supportLists]><span style='font-size:10.0pt;
|
|
mso-bidi-font-size:11.0pt;line-height:115%;mso-bidi-font-family:Calibri;
|
|
mso-bidi-theme-font:minor-latin'><span style='mso-list:Ignore'>3.<span
|
|
style='font:7.0pt "Times New Roman"'> </span></span></span><![endif]>July
|
|
5 � July 7 (3 days): Test converter with different xgmml files.</p>
|
|
|
|
<p class=MsoListParagraphCxSpMiddle style='text-indent:-.25in;mso-list:l4 level1 lfo8;
|
|
tab-stops:list .5in'><![if !supportLists]><span style='font-size:10.0pt;
|
|
mso-bidi-font-size:11.0pt;line-height:115%;mso-bidi-font-family:Calibri;
|
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mso-bidi-theme-font:minor-latin'><span style='mso-list:Ignore'>4.<span
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style='font:7.0pt "Times New Roman"'> </span></span></span><![endif]>July
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8 � July 25 (18 days): Implement graphml converter</p>
|
|
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|
<p class=MsoListParagraphCxSpMiddle style='margin-left:1.0in;mso-add-space:
|
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auto;text-indent:-.25in;mso-list:l4 level2 lfo8;tab-stops:list 1.0in'><![if !supportLists]><span
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style='font-size:10.0pt;mso-bidi-font-size:11.0pt;line-height:115%;font-family:
|
|
"Courier New";mso-fareast-font-family:"Courier New"'><span style='mso-list:
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|
Ignore'>o<span style='font:7.0pt "Times New Roman"'> </span></span></span><![endif]><span
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|
style='mso-spacerun:yes'>�</span>July 8 � July 19 (12 days): Implement graphml
|
|
parser</p>
|
|
|
|
<p class=MsoListParagraphCxSpMiddle style='margin-left:1.0in;mso-add-space:
|
|
auto;text-indent:-.25in;mso-list:l4 level2 lfo8;tab-stops:list 1.0in'><![if !supportLists]><span
|
|
style='font-size:10.0pt;mso-bidi-font-size:11.0pt;line-height:115%;font-family:
|
|
"Courier New";mso-fareast-font-family:"Courier New"'><span style='mso-list:
|
|
Ignore'>o<span style='font:7.0pt "Times New Roman"'> </span></span></span><![endif]>July
|
|
20 � July 25 (6 days): Rest of the converter</p>
|
|
|
|
<p class=MsoListParagraphCxSpMiddle style='text-indent:-.25in;mso-list:l4 level1 lfo8;
|
|
tab-stops:list .5in'><![if !supportLists]><span style='font-size:10.0pt;
|
|
mso-bidi-font-size:11.0pt;line-height:115%;mso-bidi-font-family:Calibri;
|
|
mso-bidi-theme-font:minor-latin'><span style='mso-list:Ignore'>5.<span
|
|
style='font:7.0pt "Times New Roman"'> </span></span></span><![endif]><span
|
|
style='mso-spacerun:yes'>�</span>July 26 � July 28 (3 days): Test graphml
|
|
converter</p>
|
|
|
|
<p class=MsoListParagraphCxSpMiddle style='text-indent:-.25in;mso-list:l4 level1 lfo8;
|
|
tab-stops:list .5in'><![if !supportLists]><span style='font-size:10.0pt;
|
|
mso-bidi-font-size:11.0pt;line-height:115%;mso-bidi-font-family:Calibri;
|
|
mso-bidi-theme-font:minor-latin'><span style='mso-list:Ignore'>6.<span
|
|
style='font:7.0pt "Times New Roman"'> </span></span></span><![endif]>July
|
|
29 (Mid-term evaluation):<span style='mso-spacerun:yes'>� </span>Deliver
|
|
fully-implemented xgmml and graphml parser.</p>
|
|
|
|
<p class=MsoListParagraphCxSpMiddle style='text-indent:-.25in;mso-list:l4 level1 lfo8;
|
|
tab-stops:list .5in'><![if !supportLists]><span style='font-size:10.0pt;
|
|
mso-bidi-font-size:11.0pt;line-height:115%;mso-bidi-font-family:Calibri;
|
|
mso-bidi-theme-font:minor-latin'><span style='mso-list:Ignore'>7.<span
|
|
style='font:7.0pt "Times New Roman"'> </span></span></span><![endif]>July
|
|
30: Take a day off from coding and analyze what went right and wrong in the
|
|
first-term. (How about a blog post? :D)</p>
|
|
|
|
<p class=MsoListParagraphCxSpMiddle style='text-indent:-.25in;mso-list:l4 level1 lfo8;
|
|
tab-stops:list .5in'><![if !supportLists]><span style='font-size:10.0pt;
|
|
mso-bidi-font-size:11.0pt;line-height:115%;mso-bidi-font-family:Calibri;
|
|
mso-bidi-theme-font:minor-latin'><span style='mso-list:Ignore'>8.<span
|
|
style='font:7.0pt "Times New Roman"'> </span></span></span><![endif]>July
|
|
31 � August 2 (3 days): Implement and test Sif and Nnf converter.</p>
|
|
|
|
<p class=MsoListParagraphCxSpMiddle style='text-indent:-.25in;mso-list:l4 level1 lfo8;
|
|
tab-stops:list .5in'><![if !supportLists]><span style='font-size:10.0pt;
|
|
mso-bidi-font-size:11.0pt;line-height:115%;mso-bidi-font-family:Calibri;
|
|
mso-bidi-theme-font:minor-latin'><span style='mso-list:Ignore'>9.<span
|
|
style='font:7.0pt "Times New Roman"'> </span></span></span><![endif]>August
|
|
3 � August 20 (18 days): Implement Gml converter (First 12 days for the
|
|
parser).</p>
|
|
|
|
<p class=MsoListParagraphCxSpMiddle style='text-indent:-.25in;mso-list:l4 level1 lfo8;
|
|
tab-stops:list .5in'><![if !supportLists]><span style='font-size:10.0pt;
|
|
mso-bidi-font-size:11.0pt;line-height:115%;mso-bidi-font-family:Calibri;
|
|
mso-bidi-theme-font:minor-latin'><span style='mso-list:Ignore'>10.<span
|
|
style='font:7.0pt "Times New Roman"'> </span></span></span><![endif]>August
|
|
21 � August 23 (3 days): Test Gml converter</p>
|
|
|
|
<p class=MsoListParagraphCxSpMiddle style='text-indent:-.25in;mso-list:l4 level1 lfo8;
|
|
tab-stops:list .5in'><![if !supportLists]><span style='font-size:10.0pt;
|
|
mso-bidi-font-size:11.0pt;line-height:115%;mso-bidi-font-family:Calibri;
|
|
mso-bidi-theme-font:minor-latin'><span style='mso-list:Ignore'>11.<span
|
|
style='font:7.0pt "Times New Roman"'> </span></span></span><![endif]>August
|
|
24 � August 27 (4 days):<span style='mso-spacerun:yes'>� </span>Put all the
|
|
converters together and test them (Packaging).</p>
|
|
|
|
<p class=MsoListParagraphCxSpMiddle style='text-indent:-.25in;mso-list:l4 level1 lfo8;
|
|
tab-stops:list .5in'><![if !supportLists]><span style='font-size:10.0pt;
|
|
mso-bidi-font-size:11.0pt;line-height:115%;mso-bidi-font-family:Calibri;
|
|
mso-bidi-theme-font:minor-latin'><span style='mso-list:Ignore'>12.<span
|
|
style='font:7.0pt "Times New Roman"'> </span></span></span><![endif]>August
|
|
28 � September 3 (10 days): Prepare documentation and add inline comments in
|
|
the code.</p>
|
|
|
|
<p class=MsoListParagraphCxSpLast style='text-indent:-.25in;mso-list:l4 level1 lfo8;
|
|
tab-stops:list .5in'><![if !supportLists]><span style='font-size:10.0pt;
|
|
mso-bidi-font-size:11.0pt;line-height:115%;mso-bidi-font-family:Calibri;
|
|
mso-bidi-theme-font:minor-latin'><span style='mso-list:Ignore'>13.<span
|
|
style='font:7.0pt "Times New Roman"'> </span></span></span><![endif]>September
|
|
4 � September 16 (13 days): Buffer time (If everything is working, work on the
|
|
extras) </p>
|
|
|
|
<p class=MsoNormal>(Feedback will be obtained for all the converters from the community
|
|
and they will be given more importance than the extras)</p>
|
|
|
|
<h1>Possible hurdles:</h1>
|
|
|
|
<p class=MsoNormal><o:p> </o:p></p>
|
|
|
|
<p class=MsoListParagraphCxSpFirst style='text-indent:-.25in;mso-list:l5 level1 lfo10;
|
|
tab-stops:list .5in'><![if !supportLists]><span style='font-size:10.0pt;
|
|
mso-bidi-font-size:11.0pt;line-height:115%;mso-bidi-font-family:Calibri;
|
|
mso-bidi-theme-font:minor-latin'><span style='mso-list:Ignore'>1.<span
|
|
style='font:7.0pt "Times New Roman"'> </span></span></span><![endif]>Json
|
|
handler in Cytoscape.js might not be able to handle objects within the �data�
|
|
section. If so, request the developer or send a patch to the core project so
|
|
that it is supported.</p>
|
|
|
|
<p class=MsoListParagraphCxSpMiddle style='text-indent:-.25in;mso-list:l5 level1 lfo10;
|
|
tab-stops:list .5in'><![if !supportLists]><span style='font-size:10.0pt;
|
|
mso-bidi-font-size:11.0pt;line-height:115%;mso-bidi-font-family:Calibri;
|
|
mso-bidi-theme-font:minor-latin'><span style='mso-list:Ignore'>2.<span
|
|
style='font:7.0pt "Times New Roman"'> </span></span></span><![endif]>Make
|
|
sure the regular-expression based Gml parser is not buggy.</p>
|
|
|
|
<p class=MsoListParagraphCxSpLast style='text-indent:-.25in;mso-list:l5 level1 lfo10;
|
|
tab-stops:list .5in'><![if !supportLists]><span style='font-size:10.0pt;
|
|
mso-bidi-font-size:11.0pt;line-height:115%;mso-bidi-font-family:Calibri;
|
|
mso-bidi-theme-font:minor-latin'><span style='mso-list:Ignore'>3.<span
|
|
style='font:7.0pt "Times New Roman"'> </span></span></span><![endif]>The
|
|
input graph formats might not be well-formed (if manually created). (Maybe, add
|
|
a xml-checker and discard non well-formed files. Such a checker might not be
|
|
possible in case of non-xml based formats. )</p>
|
|
|
|
<h1>What can I bring to the team?</h1>
|
|
|
|
<p class=MsoNormal><o:p> </o:p></p>
|
|
|
|
<p class=MsoListParagraphCxSpFirst style='text-indent:-.25in;mso-list:l3 level1 lfo12'><![if !supportLists]><span
|
|
style='font-family:Symbol;mso-fareast-font-family:Symbol;mso-bidi-font-family:
|
|
Symbol'><span style='mso-list:Ignore'>�<span style='font:7.0pt "Times New Roman"'>
|
|
</span></span></span><![endif]>Yes, I am committed in working hard for the GSOC
|
|
project this summer.<span style='mso-spacerun:yes'>� </span>I do not have any
|
|
other commitment during the summer other than my college internals for the next
|
|
session which should be held near the end of August or the start of September.
|
|
I am not yet sure about the date, but I will ask for a one-week break during
|
|
that time. I hope it won�t be much of a problem.</p>
|
|
|
|
<p class=MsoListParagraphCxSpMiddle style='text-indent:-.25in;mso-list:l3 level1 lfo12'><![if !supportLists]><span
|
|
style='font-family:Symbol;mso-fareast-font-family:Symbol;mso-bidi-font-family:
|
|
Symbol'><span style='mso-list:Ignore'>�<span style='font:7.0pt "Times New Roman"'>
|
|
</span></span></span><![endif]>Being my first GSOC project, I am also
|
|
super-excited about it, can�t wait to have a fruitful summer this year.</p>
|
|
|
|
<p class=MsoListParagraphCxSpLast style='text-indent:-.25in;mso-list:l3 level1 lfo12'><![if !supportLists]><span
|
|
style='font-family:Symbol;mso-fareast-font-family:Symbol;mso-bidi-font-family:
|
|
Symbol'><span style='mso-list:Ignore'>�<span style='font:7.0pt "Times New Roman"'>
|
|
</span></span></span><![endif]>I wish to learn some more about the core
|
|
Cytoscape project but as I am not a Java developer, I wish to linger with the
|
|
Cytoscape.js project.</p>
|
|
|
|
<p class=MsoNormal><o:p> </o:p></p>
|
|
|
|
<h1>Bio:</h1>
|
|
|
|
<p class=MsoNormal><o:p> </o:p></p>
|
|
|
|
<p class=MsoNormal><b style='mso-bidi-font-weight:normal'>Name:</b> Abhas
|
|
Bhattacharya</p>
|
|
|
|
<p class=MsoNormal><b style='mso-bidi-font-weight:normal'>Email:</b> <span
|
|
style='mso-spacerun:yes'>�</span><a href="mailto:abhasbhattacharya2@gmail.com">abhasbhattacharya2@gmail.com</a></p>
|
|
|
|
<p class=MsoNormal><b style='mso-bidi-font-weight:normal'>Education:</b> Passed
|
|
High School, Ongoing B. Tech (1<sup>st</sup> year) in Aerospace engineering at
|
|
BESU ( <a href="http://www.becs.ac.in">www.becs.ac.in</a> )</p>
|
|
|
|
<p class=MsoNormal><b style='mso-bidi-font-weight:normal'>Programming Languages
|
|
of choice:</b> Python, Javascript, C, C++, Java (little).</p>
|
|
|
|
<p class=MsoNormal><b style='mso-bidi-font-weight:normal'>Prior experience with
|
|
open source development:<o:p></o:p></b></p>
|
|
|
|
<p class=MsoNormal>I have some experience in working with Git and playing
|
|
around with forked projects, but didn�t really contribute in them.</p>
|
|
|
|
<p class=MsoNormal>Mostly, I am into game development, with python , gamemaker
|
|
and javascript.</p>
|
|
|
|
<p class=MsoNormal><b style='mso-bidi-font-weight:normal'>What do I want to
|
|
learn this summer?<o:p></o:p></b></p>
|
|
|
|
<p class=MsoNormal>It will be a great opportunity for me to contribute to a
|
|
project like Cytoscape by developing these converters which should help end-users.
|
|
Being mostly a hobby developer, I want to learn how to collaborate and code on
|
|
real-life open-source projects.</p>
|
|
|
|
<p class=MsoNormal><b style='mso-bidi-font-weight:normal'>Any prior exposure to
|
|
biology or bioinformatics?<o:p></o:p></b></p>
|
|
|
|
<p class=MsoNormal>Studied biology till the 10<sup>th</sup> grade.</p>
|
|
|
|
<p class=MsoNormal><b style='mso-bidi-font-weight:normal'>Any interest in
|
|
learning a bit of biology this summer?<o:p></o:p></b></p>
|
|
|
|
<p class=MsoNormal>Sure. As I was asking around in the google groups, I would
|
|
like to know more about the working of the core Cytoscape project and also a
|
|
little biology, whenever required.</p>
|
|
|
|
<p class=MsoNormal>** End **</p>
|
|
|
|
</div>
|
|
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</body>
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