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Fix absolute links to old MediaWiki images under /w/images/...
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Closes #8 by using relative links:

$ sed -i  "s#http://www.open-bio.org/w/images/./../##g" *.md
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peterjc committed Feb 8, 2024
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2 changes: 1 addition & 1 deletion BOSC_2008.md
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Expand Up @@ -86,7 +86,7 @@ posted](BOSC_2008_schedule "wikilink").

You may also download the entire BOSC program with the schedule and all
abstracts as a [PDF
file](http://www.open-bio.org/w/images/b/b6/BOSC2008_program.pdf)
file](BOSC2008_program.pdf)
(1971KB).

## Important Information for Presenters
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44 changes: 22 additions & 22 deletions BOSC_2008_schedule.md
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Expand Up @@ -6,7 +6,7 @@ layout: wiki

You may also download the entire BOSC program with the schedule and all
abstracts as a [PDF
file](http://www.open-bio.org/w/images/b/b6/BOSC2008_program.pdf)
file](BOSC2008_program.pdf)
(1971KB).

Return to [ BOSC2008](BOSC_2008 "wikilink") main page.
Expand Down Expand Up @@ -141,7 +141,7 @@ Collaboration

<span style='font-size:11.0pt'>\[cyberinfrastructure\]

` Mobyle: a New Full Web Bioinformatics Framework `[`Abstract`](http://www.open-bio.org/w/images/c/c7/Menager_Mobyle_abstract.pdf)` `[`**SLIDES**`](http://www.slideshare.net/bosc_2008/menager-mobyle-bosc2008/)</span>
` Mobyle: a New Full Web Bioinformatics Framework `[`Abstract`](Menager_Mobyle_abstract.pdf)` `[`**SLIDES**`](http://www.slideshare.net/bosc_2008/menager-mobyle-bosc2008/)</span>

</td>
</tr>
Expand All @@ -168,7 +168,7 @@ Collaboration

<span style='font-size:11.0pt'>\[cyberinfrastructure\]

` Intermine – Open Source Data Warehouse and Query Interface `[`Abstract`](http://www.open-bio.org/w/images/e/e5/Smith_R_Intermine_abstract.pdf)` `[`**SLIDES**`](http://www.slideshare.net/bosc_2008/smith-inter-mine-bosc2008/)
` Intermine – Open Source Data Warehouse and Query Interface `[`Abstract`](Smith_R_Intermine_abstract.pdf)` `[`**SLIDES**`](http://www.slideshare.net/bosc_2008/smith-inter-mine-bosc2008/)

</span>

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<span style='font-size:11.0pt'>\[cyberinfrastructure\] Bridging

` Existing Bioinformatics Tools and Data into Semantic Web Services `[`Abstract`](http://www.open-bio.org/w/images/6/69/Gordon_SemanticWeb_abstract.pdf)` `[`**SLIDES**`](http://www.slideshare.net/bosc_2008/gordon-semantic-web-2008/)
` Existing Bioinformatics Tools and Data into Semantic Web Services `[`Abstract`](Gordon_SemanticWeb_abstract.pdf)` `[`**SLIDES**`](http://www.slideshare.net/bosc_2008/gordon-semantic-web-2008/)

</span>

Expand Down Expand Up @@ -226,7 +226,7 @@ Collaboration

<span style='font-size:11.0pt'>\[cyberinfrastructure\]

` Soaplab2: More Reliable Sesame Door to Bioinformatics Programs `[`Abstract`](http://www.open-bio.org/w/images/3/3c/Rice_Soaplab2_abstract.pdf)</span>
` Soaplab2: More Reliable Sesame Door to Bioinformatics Programs `[`Abstract`](Rice_Soaplab2_abstract.pdf)</span>

</td>
</tr>
Expand Down Expand Up @@ -276,7 +276,7 @@ Collaboration
<span style='font-size:11.0pt'>\[cyberinfrastructure\]

` BeeSpace:`<span style='mso-spacerun:yes'>`  `</span>`An Interactive System for`
` Functional Analysis `[`Abstract`](http://www.open-bio.org/w/images/2/27/Sanders_Arcoleo_BeeSpace_abstract.pdf)[`**SLIDES** (PPT)`](http://www.beespace.uiuc.edu/files/BeeSpaceBOSC2008_v3.ppt)</span>
` Functional Analysis `[`Abstract`](Sanders_Arcoleo_BeeSpace_abstract.pdf)[`**SLIDES** (PPT)`](http://www.beespace.uiuc.edu/files/BeeSpaceBOSC2008_v3.ppt)</span>

</td>
</tr>
Expand Down Expand Up @@ -305,7 +305,7 @@ Collaboration

<span style='font-size:11.0pt'>\[cyberinfrastructure\]

` BioDas Project Update `[`Abstract`](http://www.open-bio.org/w/images/6/6c/Jenkinson_BioDas_abstract.pdf)`  `[`**SLIDES**`](http://www.slideshare.net/bosc_2008/andy-jenkinson-bosc-das-2008/)
` BioDas Project Update `[`Abstract`](Jenkinson_BioDas_abstract.pdf)`  `[`**SLIDES**`](http://www.slideshare.net/bosc_2008/andy-jenkinson-bosc-das-2008/)

</span>

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<span style='font-size:11.0pt'>\[visualization\] E-Cell 3D:
3-Dimensional

` Visualization of Dynamic Cell Simulation `[`Abstract`](http://www.open-bio.org/w/images/2/20/Arakawa_E-Cell3D_abstract.pdf)` `[`**SLIDES**`](http://www.g-language.org/data/gaou/presentation/BOSC08-ECell3D.pdf)</span>
` Visualization of Dynamic Cell Simulation `[`Abstract`](Arakawa_E-Cell3D_abstract.pdf)` `[`**SLIDES**`](http://www.g-language.org/data/gaou/presentation/BOSC08-ECell3D.pdf)</span>

</td>
</tr>
Expand All @@ -362,7 +362,7 @@ Collaboration

<span style='font-size:11.0pt'>\[bio\*update\] EMBOSS:

` European Molecular Biology Open Software Suite `[`Abstract`](http://www.open-bio.org/w/images/c/ca/Rice_EMBOSS_abstract.pdf)</span>
` European Molecular Biology Open Software Suite `[`Abstract`](Rice_EMBOSS_abstract.pdf)</span>

</td>
</tr>
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<span style='font-size:11.0pt'>\[bio\*update\] BioJava

` Project Update `[`Abstract`](http://www.open-bio.org/w/images/1/10/Heuer_BioJava_abstract.pdf)` `[`**SLIDES**`](http://www.slideshare.net/bosc_2008/heuer-bio-java-bosc2008/)
` Project Update `[`Abstract`](Heuer_BioJava_abstract.pdf)` `[`**SLIDES**`](http://www.slideshare.net/bosc_2008/heuer-bio-java-bosc2008/)

</span>

Expand Down Expand Up @@ -420,7 +420,7 @@ Collaboration

<span style='font-size:11.0pt'>\[lightning talk\] Use the

` Make Utility for the Maintenance of Complex Bioinformatics Pipelines `[`Abstract`](http://www.open-bio.org/w/images/a/a9/Wilson_Make_abstract.pdf)` `[`**SLIDES**`](http://www.slideshare.net/bosc_2008/wilson-make-bosc2008/)` `
` Make Utility for the Maintenance of Complex Bioinformatics Pipelines `[`Abstract`](Wilson_Make_abstract.pdf)` `[`**SLIDES**`](http://www.slideshare.net/bosc_2008/wilson-make-bosc2008/)` `

</span>

Expand Down Expand Up @@ -449,7 +449,7 @@ Collaboration

<span style='font-size:11.0pt'>\[lightning talk\] SolexaTools: An Open
Source Sequence Analysis Framework
[Abstract](http://www.open-bio.org/w/images/6/63/OConnor_SolexaTools_abstract.pdf)
[Abstract](OConnor_SolexaTools_abstract.pdf)
[\*\*SLIDES\*\*](http://www.slideshare.net/bosc_2008/o-connor-solexa-tools-bosc2008/)</span>

</td>
Expand Down Expand Up @@ -573,7 +573,7 @@ Arial'>Schedule (Day 2)</span></b>

<span style='font-size:11.0pt'>\[workflows\] Interoperability

` with BioMoby – Past, Present, and Future `[`Abstract`](http://www.open-bio.org/w/images/d/da/Wilkinson_BioMoby_abstract.pdf)</span>
` with BioMoby – Past, Present, and Future `[`Abstract`](Wilkinson_BioMoby_abstract.pdf)</span>

</td>
</tr>
Expand Down Expand Up @@ -601,7 +601,7 @@ Arial'>Schedule (Day 2)</span></b>
<span style='font-size:11.0pt'>\[workflows\] Ergatis: A

` Web-based Bioinformatics Pipeline Management and Collaborative Development`
` System `[`Abstract`](http://www.open-bio.org/w/images/5/59/Orvis_Ergatis_abstract.pdf)</span>
` System `[`Abstract`](Orvis_Ergatis_abstract.pdf)</span>

</td>
</tr>
Expand All @@ -628,7 +628,7 @@ Arial'>Schedule (Day 2)</span></b>

<span style='font-size:11.0pt'>\[workflows\] Chipster – User

` Friendly DNA Microarray Analysis Software `[`Abstract`](http://www.open-bio.org/w/images/7/7e/Kallio_Chipster_abstract.pdf)` `[`**SLIDES**`](http://www.slideshare.net/bosc_2008/kallio-chipster-bosc2008/)</span>
` Friendly DNA Microarray Analysis Software `[`Abstract`](Kallio_Chipster_abstract.pdf)` `[`**SLIDES**`](http://www.slideshare.net/bosc_2008/kallio-chipster-bosc2008/)</span>

</td>
</tr>
Expand Down Expand Up @@ -677,7 +677,7 @@ Arial'>Schedule (Day 2)</span></b>

<span style='font-size:11.0pt'>\[workflows\] myExperiment:

` Social Software for Sharing Workflows `[`Abstract`](http://www.open-bio.org/w/images/7/75/Bhagat_myExperiment_abstract.pdf)` `[`**SLIDES**`](http://www.slideshare.net/bosc_2008/bhagat-myexperiment-bosc2008/)</span>
` Social Software for Sharing Workflows `[`Abstract`](Bhagat_myExperiment_abstract.pdf)` `[`**SLIDES**`](http://www.slideshare.net/bosc_2008/bhagat-myexperiment-bosc2008/)</span>

</td>
</tr>
Expand All @@ -704,7 +704,7 @@ Arial'>Schedule (Day 2)</span></b>

<span style='font-size:11.0pt'>\[workflows\] BioHDF: Open Binary

` File Formats for Large Scale Data Management `[`Abstract`](http://www.open-bio.org/w/images/2/22/Smith_T_BioHDF_Abstract_revised.pdf)` `[`**SLIDES**`](http://www.slideshare.net/bosc_2008/smith-t-bio-hdf-bosc2008/)</span>
` File Formats for Large Scale Data Management `[`Abstract`](Smith_T_BioHDF_Abstract_revised.pdf)` `[`**SLIDES**`](http://www.slideshare.net/bosc_2008/smith-t-bio-hdf-bosc2008/)</span>

</td>
</tr>
Expand Down Expand Up @@ -732,7 +732,7 @@ Arial'>Schedule (Day 2)</span></b>
<span style='font-size:11.0pt'>\[open source software\] The

` Open HeliSphere`<sup>`TM`</sup>` Project: True Open Source from the Inventors of`
` True Single Molecule Sequencing `[`Abstract`](http://www.open-bio.org/w/images/f/fb/Kitzmiller_OpenHeliSphere_abstract.pdf)` `[`**SLIDES**`](http://www.slideshare.net/bosc_2008/kitzmiller-openhelisphereproject-bosc2008/)</span>
` True Single Molecule Sequencing `[`Abstract`](Kitzmiller_OpenHeliSphere_abstract.pdf)` `[`**SLIDES**`](http://www.slideshare.net/bosc_2008/kitzmiller-openhelisphereproject-bosc2008/)</span>

</td>
</tr>
Expand All @@ -759,7 +759,7 @@ Arial'>Schedule (Day 2)</span></b>

<span style='font-size:11.0pt'>\[open source software\]

` Apollo: a Sequence Annotation Editor (with demonstration to follow) `[`Abstract`](http://www.open-bio.org/w/images/3/3a/Lee_Apollo_abstract.pdf)` `[`**SLIDES**`](http://www.slideshare.net/bosc_2008/lee-apollo-bosc2008/)</span>
` Apollo: a Sequence Annotation Editor (with demonstration to follow) `[`Abstract`](Lee_Apollo_abstract.pdf)` `[`**SLIDES**`](http://www.slideshare.net/bosc_2008/lee-apollo-bosc2008/)</span>

</td>
</tr>
Expand Down Expand Up @@ -808,7 +808,7 @@ Arial'>Schedule (Day 2)</span></b>

<span style='font-size:11.0pt'>\[bio\*update\] BioSQL

` Reloaded: 1.0 Release, PhyloDB Module, and Future Features `[`Abstract`](http://www.open-bio.org/w/images/3/3b/Lapp_BioSQL_abstract.pdf)` `[`**SLIDES**`](http://www.slideshare.net/hlapp/lapp-biosql-bosc2008)</span>
` Reloaded: 1.0 Release, PhyloDB Module, and Future Features `[`Abstract`](Lapp_BioSQL_abstract.pdf)` `[`**SLIDES**`](http://www.slideshare.net/hlapp/lapp-biosql-bosc2008)</span>

</td>
</tr>
Expand Down Expand Up @@ -837,7 +837,7 @@ Arial'>Schedule (Day 2)</span></b>

<span style='font-size:11.0pt'>\[bio\*update\] EMBRACE –

` BioMart Developments and Future `[`Abstract`](http://www.open-bio.org/w/images/1/10/Haider_EMBRACE_abstract.pdf)` `[`**SLIDES**`](http://www.slideshare.net/bosc_2008/haider-embrace-bosc2008/)</span>
` BioMart Developments and Future `[`Abstract`](Haider_EMBRACE_abstract.pdf)` `[`**SLIDES**`](http://www.slideshare.net/bosc_2008/haider-embrace-bosc2008/)</span>

</td>
</tr>
Expand Down Expand Up @@ -866,7 +866,7 @@ Arial'>Schedule (Day 2)</span></b>

<span style='font-size:11.0pt'>\[bio\*update\] Biopython

` Project Update 2008 `[`Abstract`](http://www.open-bio.org/w/images/e/e3/Antao_Biopython_abstract.pdf)` `[`**SLIDES**`](http://www.slideshare.net/bosc_2008/antao-biopython-bosc2008/)
` Project Update 2008 `[`Abstract`](Antao_Biopython_abstract.pdf)` `[`**SLIDES**`](http://www.slideshare.net/bosc_2008/antao-biopython-bosc2008/)

</span>

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2 changes: 1 addition & 1 deletion BOSC_2014.md
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Expand Up @@ -34,7 +34,7 @@ Brad Chapman's [blog
posts](http://smallchangebio.wordpress.com/2014/07/11/notes-bioinformatics-open-source-conference-2014-day-1-afternoon-visualization-project-updates-and-lightning-talks/)

[BioInform article about Philip Bourne's keynote
talk](http://www.open-bio.org/w/images/d/dd/Bosc2014-bioinform.pdf)
talk](Bosc2014-bioinform.pdf)
(posted with permission)

[James Malone's blog
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2 changes: 1 addition & 1 deletion BOSC_2015_Schedule.md
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Expand Up @@ -22,7 +22,7 @@ playlist](https://www.youtube.com/playlist?list=PLir-OOQiOhXbENjAIFF-JZ0WodnysPq
The full program including abstracts is available
[here](http://www.open-bio.org/bosc2015/BOSC2015-program-with-abstracts.pdf).
The PDF of this schedule (without abstracts) is available
[here](http://www.open-bio.org/w/images/2/2c/BOSC2015-schedule.pdf).
[here](BOSC2015-schedule.pdf).

## Sponsors

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4 changes: 2 additions & 2 deletions Codefest_2010.md
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Expand Up @@ -37,7 +37,7 @@ environments like [Amazon Elastic Compute
Cloud](http://aws.amazon.com/ec2/) and
[Eucalyptus](http://open.eucalyptus.com/). Ntino has written up an
excellent project proposal available for [download in pdf
format](http://www.open-bio.org/w/images/8/85/BOSC_2010_Cloud_BioLinux.pdf).
format](BOSC_2010_Cloud_BioLinux.pdf).

Initial work has started to develop an automated build environment that
incorporates the [Cloud
Expand Down Expand Up @@ -89,7 +89,7 @@ technology.
left. When you arrive, the security guard should have your name, but
if not, tell him you are attending the Hackathon and he will let you
through. If you get lost use the [PDF
map](http://www.open-bio.org/w/images/2/25/Brigham_Circle_-_Countway_Map.pdf)
map](Brigham_Circle_-_Countway_Map.pdf)
as a guide.

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