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4562?size=60x60 Nl Maria Paula Balcazar-Vargas
Project Biovel
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Blob Matrix Population Models analysis documentation

Created: 2014-07-25 10:55:42

Credits: User Maria Paula Balcazar-Vargas User Jon Giddy User Gerard Oostermeijer

Attributions: Workflow Matrix Population Model analysis v12

License: Creative Commons Attribution-Share Alike 3.0 Unported License

This documentation (tutorial to run the workflow) explains how to run a workflow that belongs to the pack with same name.The Matrix Population Models analysis Workflow provides an environment to perform several analyses on a stage-matrix with no density dependence.Analyses:Eigen analysis.Age specific survival.Generation time (T).Net reproductive rate (Ro).Transient Dynamics.Resample a projection matrix (Confidence intervals of λ).Survival curveKeyfitz’s ΔCohen’s cumul...

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4562?size=60x60 Nl Maria Paula Balcazar-Vargas
Project Biovel
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Blob Matrix Population Models construction and analyses d...

Created: 2014-07-25 10:48:13 | Last updated: 2014-07-25 10:50:17

Credits: User Maria Paula Balcazar-Vargas User Jon Giddy User Gerard Oostermeijer

Attributions: Workflow Matrix Population Model construction and analysis v20

License: Creative Commons Attribution-Share Alike 3.0 Unported License

This documentation (tutorial to run the workflow) explains how to run a workflow that belongs to the pack with same name.The Matrix Population Models construction and analyses Workflow provides an environment for create a stage-matrix with no density dependence and perform several analyses on it.Analyses:Eigen analysis.Age specific survival.Generation time (T).Net reproductive rate (Ro).Transient Dynamics.Bootstrap of observed census transitions (Confidence intervals of λ).Survival cur...

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4562?size=60x60 Nl Maria Paula Balcazar-Vargas
Project Biovel
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Blob Bootstrap of observed census transitions documentation

Created: 2014-07-25 10:37:03

Credits: User Maria Paula Balcazar-Vargas User Jon Giddy User Gerard Oostermeijer

License: Creative Commons Attribution-Share Alike 3.0 Unported License

This documentation (tutorial to run the workflow) explains how to run a workflow that belongs to the pack with same name.The Bootstrap of observed census transitions (confidence intervals of λ) workflow for local execution calculates bootstrap distributions of population growth rates (λ), stage vectors, and projection matrix elements by randomly sampling with replacement from a stage-fate data frame of observed transitions. The goal of a demographic analysis is very often to est...

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4562?size=60x60 Nl Maria Paula Balcazar-Vargas
Project Biovel
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Blob Parametric Bootstrap or Resample a projection matrix...

Created: 2014-07-25 09:41:10

Credits: User Maria Paula Balcazar-Vargas User Jon Giddy User Gerard Oostermeijer

Attributions: Workflow Parametric Bootstrap or Resample a projection matrix Workflow

License: Creative Commons Attribution-Share Alike 3.0 Unported License

This documentation (tutorial to run the workflow) explains how to run a workflow that belongs to the pack with same name.The Parametric Bootstrap or Resample a projection matrix Workflow provides an environment to resample a projection matrix using a multinomial distribution for transitions and a log normal distribution for fertilities (Stubben, Milligan, and Nantel. 2011). The resample is based on number of plants surveyed. The projection matrix A is first split into separate transition and ...

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4562?size=60x60 Nl Maria Paula Balcazar-Vargas
Project Biovel
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Blob Age-specific survival documentation

Created: 2014-07-24 11:48:40

Credits: User Maria Paula Balcazar-Vargas User Jon Giddy User Gerard Oostermeijer

Attributions: Workflow Age specific analysis

License: Creative Commons Attribution-Share Alike 3.0 Unported License

This documentation (tutorial to run the workflow) explains how to run a workflow that belongs to the pack with the same name.The age-specific survival analysis workflow gives the basic information of the mean, variance and coefficient of variation (CV) of the time spent in each stage class and the mean and variance of the time of death.AnalysesFundamental matrix (N)Variance(var)Coefficient of variation (CV)MeanetaVareta

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4562?size=60x60 Nl Maria Paula Balcazar-Vargas
Project Biovel
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Blob Keyfitz’s delta documentation

Created: 2014-07-24 08:25:05

Credits: User Maria Paula Balcazar-Vargas User Jon Giddy User Gerard Oostermeijer

Attributions: Workflow Keyfitz delta

License: Creative Commons Attribution-Share Alike 3.0 Unported License

This is documentation (tutorial to run the workflow) explains how to run a workflow that belongs to the pack with the same name.The Keyfitz’s delta Workflow provides an environment to calculate the Keyfitz delta value. Keyfitz’s delta is a measure of the distance between any two probability vectors (Keyfitz 1968). In this case is a measure of the distance between n (Observed Stage Distribution) and w (Stable Stage Distribution). The maximum value is 1 and the minimum value is 0 (w...

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4562?size=60x60 Nl Maria Paula Balcazar-Vargas
Project Biovel
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Blob Cohen’s cumulative distance documentation

Created: 2014-07-24 08:20:42

Credits: User Maria Paula Balcazar-Vargas User Jon Giddy User Gerard Oostermeijer

Attributions: Workflow Cohen’s cumulative distance

License: Creative Commons Attribution-Share Alike 3.0 Unported License

This documentation (tutorial to run the workflow) explains how to run a workflow that belongs to the pack with same name.The Cohen’s cumulative distance Workflow provides an environment to calculate the Cohen’s cumulative distance. The Cohen’s cumulative distance measures the difference between observed and expected vectors along the matrix path that the population would take to reach the expected population vector. It is a function of both the observed stage distribution (n...

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1217?size=60x60 Gb Alan Williams
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Blob XPath tutorial presentation

Created: 2014-07-16 12:16:48

Credits: User Alan Williams

License: Creative Commons Attribution-Share Alike 3.0 Unported License

This is a tutorial introducing how to use Taverna's XPath capabilities

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1217?size=60x60 Gb Alan Williams
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Blob Taverna Workbench introduction presentation

Created: 2014-07-16 12:15:19

Credits: User Alan Williams

License: Creative Commons Attribution-Share Alike 3.0 Unported License

This is a tutorial designed to introduce the basic features of Taverna Workbench

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1217?size=60x60 Gb Alan Williams
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Blob Help presentation

Created: 2014-07-16 12:13:54

Credits: User Alan Williams

License: Creative Commons Attribution-Share Alike 3.0 Unported License

This is a presentation of information on where to find help on myGrid tools

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1217?size=60x60 Gb Alan Williams
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Blob Introduction to using components presentation

Created: 2014-07-16 12:12:13

Credits: User Alan Williams

License: Creative Commons Attribution-Share Alike 3.0 Unported License

This is a quick tutorial on how to use components within a workflow

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1217?size=60x60 Gb Alan Williams
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Blob Advanced Taverna Features Presentation

Created: 2014-07-16 12:09:47 | Last updated: 2014-07-16 12:10:55

Credits: User Alan Williams

License: Creative Commons Attribution-Share Alike 3.0 Unported License

This is a tutorial on some of Taverna's advanced features.

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4011?size=60x60 Gb Alex Nenadic
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Blob myGrid Tools for Scientists Presentation

Created: 2014-07-16 12:03:42 | Last updated: 2014-07-18 14:43:15

Credits: User Alex Nenadic

License: Creative Commons Attribution-Share Alike 3.0 Unported License

Introduction to myGrid tools for scientists

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Avatar Amrish Mahes
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Blob example output of the concept profile generation pip...

Created: 2014-06-26 14:52:48

Credits: User Amrish Mahes

License: Creative Commons Attribution-Share Alike 3.0 Unported License

This is an example output the workflow "Concept Profile Generation Pipeline" produces when the input for the thesaurus is the thesaurus example in the workflow itself and the abstract input is from the SQL file named "example standard input for Concept Profile Generation Pipeline". This SQL file needs to be run in a SQL program with a pre-created database/schema called mydb. It produces 5 tables. These consists out of the co-occurrence, occurrence, unce...

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Avatar Amrish Mahes
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Blob example standard input for Concept Profile Generatio...

Created: 2014-06-26 14:36:00

Credits: User Amrish Mahes

License: Creative Commons Attribution-Share Alike 3.0 Unported License

This is a SQL file containing example standard input values for testing the concept profile generation pipeline. Run this SQL file in your SQL program with a pre-created database/schema named mydb. It will insert 1 table called abstracts with 10 abstracts and their pubmed id. The workflow will use this table as input for finding concept occurrences. 

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Avatar Rekha Maryanne Louis
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Blob Usability test file

Created: 2014-06-10 14:27:16

Credits: User Rekha Maryanne Louis

License: No license

This is a test .doc file for usability study of myExperiment from May to August 2014

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Avatar Fr Charlotte Rieux
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Blob The "drop" folder to save in your knime workspace

Created: 2014-05-30 07:26:57 | Last updated: 2014-06-20 06:23:49

Credits: User Charlotte Rieux

License: Creative Commons Attribution-Share Alike 3.0 Unported License

Components :FASTA,Alignments,PDB,SDF,Tables,Softwares

File type: ZIP archive

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3194?size=60x60 Hu Ferenc HORVATH
Project Biovel
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Blob TEST DEMO Daily Observation Data 2001-2002 - HUMUS

Created: 2014-05-27 15:20:38

Credits: User Ferenc HORVATH

License: Creative Commons Attribution-Share Alike 3.0 Unported License

TEST DEMO Daily Observation Data 2001-2002 - HUMUS

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3194?size=60x60 Hu Ferenc HORVATH
Project Biovel
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Blob TEST DEMO Daily Observation Data 2001-2002 - AIR

Created: 2014-05-27 15:18:56

Credits: User Ferenc HORVATH

License: Creative Commons Attribution-Share Alike 3.0 Unported License

TEST DEMO Daily Observation Data 2001-2002 - AIR

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3194?size=60x60 Hu Ferenc HORVATH
Project Biovel
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Blob TEST DEMO Daily Observation Data 2001-2002 - HUMUS

Created: 2014-05-26 09:44:56

Credits: User Ferenc HORVATH

License: Creative Commons Attribution-Share Alike 3.0 Unported License

TEST DEMO Daily Observation Data 2001-2002 - HUMUS for GLUE analysis

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3194?size=60x60 Hu Ferenc HORVATH
Project Biovel
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Blob TEST DEMO Daily Observation Data 2001-2002 - AIR

Created: 2014-05-26 09:43:22

Credits: User Ferenc HORVATH

License: Creative Commons Attribution-Share Alike 3.0 Unported License

TEST DEMO Daily Observation Data 2001-2002 - AIR for GLUE analysis

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3194?size=60x60 Hu Ferenc HORVATH
Project Biovel
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Blob TEST DEMO Daily Observation Data 2001-2002 - AIR

Created: 2014-05-26 09:37:48

Credits: User Ferenc HORVATH

License: Creative Commons Attribution-Share Alike 3.0 Unported License

TEST DEMO Daily Observation Data 2001-2002 - AIR for GLUE analysis

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3194?size=60x60 Hu Ferenc HORVATH
Project Biovel
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Blob TEST DEMO Daily Observation Data 2001-2002 - NINE

Created: 2014-05-26 06:42:09 | Last updated: 2014-05-26 09:40:45

Credits: User Ferenc HORVATH

License: Creative Commons Attribution-Share Alike 3.0 Unported License

TEST DEMO Daily Observation Data 2001-2002 - NINE for GLUE analysis

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3194?size=60x60 Hu Ferenc HORVATH
Project Biovel
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Blob TEST DEMO Daily Observation Data 2001-2002 - HUMUS

Created: 2014-05-26 06:40:56

Credits: User Ferenc HORVATH

License: Creative Commons Attribution-Share Alike 3.0 Unported License

TEST DEMO Daily Observation Data 2001-2002 - HUMUS for GLUE analysis

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3194?size=60x60 Hu Ferenc HORVATH
Project Biovel
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Blob TEST DEMO Daily Observation Data 2001-2002 - AIR

Created: 2014-05-26 06:39:44

Credits: User Ferenc HORVATH

License: Creative Commons Attribution-Share Alike 3.0 Unported License

TEST DEMO Daily Observation Data 2001-2002 - AIR for GLUE analysis

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3194?size=60x60 Hu Ferenc HORVATH
Project Biovel
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Blob TEST DEMO METDATA FOR Biome-BGC, HHS, 2001-2002

Created: 2014-05-26 06:07:20

Credits: User Ferenc HORVATH

License: Creative Commons Attribution-Share Alike 3.0 Unported License

TEST DEMO METDATA (daily meteorology data) file for Biome-BGC simulation runs, HHS (Hegyhátsál, HU), 2001-2002

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3194?size=60x60 Hu Ferenc HORVATH
Project Biovel
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Blob TEST DEMO METDATA + FORESEE FOR Biome-BGC, HHS, 190...

Created: 2014-05-26 06:05:43

Credits: User Ferenc HORVATH

License: Creative Commons Attribution-Share Alike 3.0 Unported License

TEST DEMO METDATA (daily meteorology data) file for Biome-BGC simulation runs, HHS (Hegyhátsál, HU), 1901-2100, predictions is came from FORESEE CLM regional model output

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3194?size=60x60 Hu Ferenc HORVATH
Project Biovel
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Blob TEST DEMO METDATA FOR Biome-BGC, HHS, 1901-2000

Created: 2014-05-26 06:01:41

Credits: User Ferenc HORVATH

License: Creative Commons Attribution-Share Alike 3.0 Unported License

TEST DEMO METDATA (daily meteorology data) file for Biome-BGC simulation runs

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3194?size=60x60 Hu Ferenc HORVATH
Project Biovel
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Blob TEST DEMO EPC GRASSLAND MuSo v2.2 LEAFAREA

Created: 2014-05-26 05:58:54

Credits: User Ferenc HORVATH

License: Creative Commons Attribution-Share Alike 3.0 Unported License

TEST DEMO EPC file 'LEAFAREA' for Biome-BGC MuSo v2.2 simulation runs

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3194?size=60x60 Hu Ferenc HORVATH
Project Biovel
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Blob TEST DEMO EPC GRASSLAND MuSo v2.2 NITROGEN

Created: 2014-05-26 05:57:25

Credits: User Ferenc HORVATH

License: Creative Commons Attribution-Share Alike 3.0 Unported License

TEST DEMO EPC file 'NITROGEN' for Biome-BGC MuSo v2.2 simulation runs

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3194?size=60x60 Hu Ferenc HORVATH
Project Biovel
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Blob TEST DEMO EPC GRASSLAND MuSo v2.2 HARMONY

Created: 2014-05-26 05:55:49

Credits: User Ferenc HORVATH

License: Creative Commons Attribution-Share Alike 3.0 Unported License

TEST DEMO EPC file 'HARMONY' for Biome-BGC MuSo v2.2 simulation runs

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3194?size=60x60 Hu Ferenc HORVATH
Project Biovel
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Blob Biome-BGC 4.1.1 executable for Windows

Created: 2014-05-21 05:01:21

Credits: User Ferenc HORVATH

License: Creative Commons Attribution-Share Alike 3.0 Unported License

Compressed directory contains all necessary subdirectories and files for running the Biome-BGC model, version 4.1.1 MPI.

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3194?size=60x60 Hu Ferenc HORVATH
Project Biovel
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Blob Trusilova et al. (2009) Parameter estimation and val...

Created: 2014-05-21 04:56:56 | Last updated: 2014-05-21 05:15:32

Credits: User Ferenc HORVATH

License: Creative Commons Attribution-Share Alike 3.0 Unported License

Trusilova, K., Trembath, J., Churkina, G. (2009) Parameter estimation and validation of the terrestrial ecosystem model Biome-BGC using eddy-covariance flux measurements. Max-Planck-Institut für Biogeochemie, Technical Reports 16, 1-60.      

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3194?size=60x60 Hu Ferenc HORVATH
Project Biovel
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Blob Thornton (2000) User's Guide for Biome-BGC, version ...

Created: 2014-05-21 04:54:33

Credits: User Ferenc HORVATH

License: Creative Commons Attribution-Share Alike 3.0 Unported License

This User's Guide give a detailed reference to setting Biome-BGC model.

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3655?size=60x60 Nl Magnus Palmblad
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Blob LabVIEW Equivalent of Tutorial 1 Workflow

Created: 2014-05-05 11:39:35

Credits: User Magnus Palmblad

Attributions: Workflow Tutorial 1 Workflow

License: Creative Commons Attribution-Share Alike 3.0 Unported License

What is it?This is a LabVIEW equivalent of the 2014 LUMC Taverna Tutorial (a Taverna version is available at http://www.myexperiment.org/workflows/4254.html) created by Dr. David Kilgour. The workflow is an executable that only requires the free (gratis) LabVIEW Run-Time Engine. Why do we share this?The workflows demonstrates the capabilities in Taverna and LabVIEW, and may be of assistance for people who are familiar with one system who wish to get an idea about the other. This is the f...

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9?size=60x60 Gb Stian Soiland-Reyes
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Blob TEST file

Created: 2014-04-29 13:21:44

Credits: User Stian Soiland-Reyes

License: Creative Commons Attribution-Share Alike 3.0 Unported License

Why is this so tiny?

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1404?size=60x60 Gb Christian
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Blob Starter Pack CommandLine Testing bat file

Created: 2014-04-10 16:27:27 | Last updated: 2014-04-16 13:05:13

Credits: User Christian

License: Creative Commons Attribution-Share Alike 3.0 Unported License

This is a bat file used to Test the Taverna Starter packhttp://www.myexperiment.org/packs/612.htmlUsing Taverna Command Line 

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1404?size=60x60 Gb Christian
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Blob AstroTaverna Starter Pack CommandLine Testing bat file

Created: 2014-04-10 16:16:34 | Last updated: 2014-04-16 13:06:55

Credits: User Christian

License: Creative Commons Attribution-Share Alike 3.0 Unported License

This is the bat file used to Test AstroTaverna Starter packhttp://www.myexperiment.org/packs/420.htmlUsing Taverna CommandLine

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1404?size=60x60 Gb Christian
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Blob Table format coversion: ASCII to VOTable Example Input

Created: 2014-04-10 15:06:40

Credits: User Christian

License: Creative Commons Attribution-Share Alike 3.0 Unported License

Example Input File for workflow Table format coversion: ASCII to VOTablehttp://www.myexperiment.org/workflows/3513.htmlUsed for CommandLine testing

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1404?size=60x60 Gb Christian
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Blob Coordinate units conversion Example Input

Created: 2014-04-10 14:47:59

Credits: User Christian

License: Creative Commons Attribution-Share Alike 3.0 Unported License

Example input VOTable for workflow Coordinate units conversionhttp://www.myexperiment.org/workflows/3515.htmlUsed for CommandLine testing

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1404?size=60x60 Gb Christian
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Blob Joins two VOTables with the same numer of rows into ...

Created: 2014-04-10 14:16:19

Credits: User Christian

License: Creative Commons Attribution-Share Alike 3.0 Unported License

Example Values for the Parameter VOTable1 for workflow Joins two VOTables with the same numer of rows into a single onehttp://www.myexperiment.org/workflows/3518.htmlUsed for CommandLine Testing

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1404?size=60x60 Gb Christian
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Blob Joins two VOTables with the same numer of rows into ...

Created: 2014-04-10 14:16:13

Credits: User Christian

License: Creative Commons Attribution-Share Alike 3.0 Unported License

Example Values for the Parameter VOTable2 for workflow Joins two VOTables with the same numer of rows into a single onehttp://www.myexperiment.org/workflows/3518.htmlUsed for CommandLine Testing

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1404?size=60x60 Gb Christian
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Blob Extract a column from a VOTable into a List example ...

Created: 2014-04-10 14:01:29

Credits: User Christian

License: Creative Commons Attribution-Share Alike 3.0 Unported License

This is the example input values for the parameter VOTable for the workflow Extract a column from a VOTable into a Listhttp://www.myexperiment.org/workflows/3437.htmlUsed for CommandLine testing. 

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Blob Cocatenates several VOTables into one votable1 examp...

Created: 2014-04-10 13:34:08

Credits: User Christian

License: Creative Commons Attribution-Share Alike 3.0 Unported License

Example value for parameter votable1 for workflow "Cocatenates several VOTables" into one http://www.myexperiment.org/workflows/3130.html

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1404?size=60x60 Gb Christian
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Blob Cocatenates several VOTables example value for votable2

Created: 2014-04-10 13:33:57

Credits: User Christian

License: Creative Commons Attribution-Share Alike 3.0 Unported License

Example value for parameter votable2 for workflow "Cocatenates several VOTables" into one http://www.myexperiment.org/workflows/3130.html

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Blob Cocatenates several VOTables example value for votable3

Created: 2014-04-10 13:33:33

Credits: User Christian

License: Creative Commons Attribution-Share Alike 3.0 Unported License

Example value for parameter votable3 for workflow "Cocatenates several VOTables" into one http://www.myexperiment.org/workflows/3130.html

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1404?size=60x60 Gb Christian
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Blob Cocatenates several VOTables example value for votable4

Created: 2014-04-10 13:33:17

Credits: User Christian

License: Creative Commons Attribution-Share Alike 3.0 Unported License

Example value for parameter votable4 for workflow "Cocatenates several VOTables" into one http://www.myexperiment.org/workflows/3130.html

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Blob Select columns from VOTable Example Input Value

Created: 2014-04-10 12:48:14 | Last updated: 2014-04-10 13:10:26

Credits: User Christian

License: Creative Commons Attribution-Share Alike 3.0 Unported License

Example input Data for Workflow Select columns from VOTablehttp://www.myexperiment.org/workflows/3520.htmlCan also be used to test Select rows from VOTablehttp://www.myexperiment.org/workflows/3519.html Used for CommandLine Testing

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1404?size=60x60 Gb Christian
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Blob Transformation of reference coordinate system Exampl...

Created: 2014-04-10 12:34:41

Credits: User Christian

License: Creative Commons Attribution-Share Alike 3.0 Unported License

This is the example Input for the workflow Transformation of reference coordinate systemhttp://www.myexperiment.org/workflows/3551.htThis is intended for CommandLine Testing 

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Blob Add a common row to a VOTable MainVOTable example V...

Created: 2014-04-10 12:21:17

Credits: User Christian

License: Creative Commons Attribution-Share Alike 3.0 Unported License

This is the example value for the MainVOTable parameter in the workflow Add a common row to a VOTablehttp://www.myexperiment.org/workflows/3552.htmlUsed for CommanLineTesting

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