1. NetPathMiner
  2. DESCRIPTION
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bump x.y.z version to odd y following creation of RELEASE_3_17 branch

J Wokaty authored on 25/04/2023 14:31:58
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 Package: NetPathMiner
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-Version: 1.36.0
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+Version: 1.37.0
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 Date: 2014 onwards
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 Title: NetPathMiner for Biological Network Construction, Path Mining
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     and Visualization
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bump x.y.z version to even y prior to creation of RELEASE_3_17 branch

J Wokaty authored on 25/04/2023 14:31:58
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 Package: NetPathMiner
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-Version: 1.35.7
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+Version: 1.36.0
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 Date: 2014 onwards
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 Title: NetPathMiner for Biological Network Construction, Path Mining
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     and Visualization
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version pump.

Ahmed Mohamed authored on 03/03/2023 06:48:41
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 Package: NetPathMiner
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-Version: 1.35.6
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+Version: 1.35.7
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 Date: 2014 onwards
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 Title: NetPathMiner for Biological Network Construction, Path Mining
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     and Visualization
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version pump.

Ahmed Mohamed authored on 23/02/2023 05:47:44
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 Package: NetPathMiner
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-Version: 1.35.5
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+Version: 1.35.6
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 Date: 2014 onwards
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 Title: NetPathMiner for Biological Network Construction, Path Mining
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     and Visualization
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Debugging configure.win

Ahmed Mohamed authored on 20/02/2023 01:20:12
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 Package: NetPathMiner
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-Version: 1.35.4
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+Version: 1.35.5
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 Date: 2014 onwards
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 Title: NetPathMiner for Biological Network Construction, Path Mining
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     and Visualization
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Use CPPFLAGs instead of CXXFLAGS for includes.

Ahmed Mohamed authored on 13/02/2023 10:47:15
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 Package: NetPathMiner
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-Version: 1.35.3
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+Version: 1.35.4
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 Date: 2014 onwards
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 Title: NetPathMiner for Biological Network Construction, Path Mining
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     and Visualization
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Revert Makevars CPPFLAGs order.

Ahmed Mohamed authored on 12/02/2023 22:28:11
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 Package: NetPathMiner
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-Version: 1.35.2
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+Version: 1.35.3
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 Date: 2014 onwards
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 Title: NetPathMiner for Biological Network Construction, Path Mining
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     and Visualization
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Pump version.

Ahmed Mohamed authored on 10/02/2023 05:34:31
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 Package: NetPathMiner
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-Version: 1.35.1
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+Version: 1.35.2
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 Date: 2014 onwards
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 Title: NetPathMiner for Biological Network Construction, Path Mining
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     and Visualization
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Pump version.

Ahmed Mohamed authored on 08/02/2023 13:58:10
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DESCRIPTION
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1 1 
 Package: NetPathMiner
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-Version: 1.35.0
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+Version: 1.35.1
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 Date: 2014 onwards
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 Title: NetPathMiner for Biological Network Construction, Path Mining
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     and Visualization
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Update authors in DESCRIPTION.

Ahmed Mohamed authored on 08/02/2023 03:30:32
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DESCRIPTION
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3 3 
 Date: 2014 onwards
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 Title: NetPathMiner for Biological Network Construction, Path Mining
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     and Visualization
6 
-Author: Ahmed Mohamed <mohamed@kuicr.kyoto-u.ac.jp>, Tim Hancock
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-    <timothy.hancock@kuicr.kyoto-u.ac.jp>, Ichigaku Takigawa
8 
-    <takigawa@kuicr.kyoto-u.ac.jp>, Nicolas Wicker
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-    <nicolas.wicker@unistra.fr>
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-Maintainer: Ahmed Mohamed <mohamed@kuicr.kyoto-u.ac.jp>
6 
+Authors@R: c(
7 
+    person("Ahmed", "Mohamed", , "mohamed@kuicr.kyoto-u.ac.jp", role = c("aut", "cre"),
8 
+           comment = c(ORCID = "0000-0001-6507-5300")),
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+    person("Tim", "Hancock", , "timothy.hancock@kuicr.kyoto-u.ac.jp", role = c("aut")),
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+    person("Tim", "Hancock", , "timothy.hancock@kuicr.kyoto-u.ac.jp", role = c("aut"))
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+    )
11 12 
 Description: NetPathMiner is a general framework for network path
12 13 
     mining using genome-scale networks. It constructs networks from
13 14 
     KGML, SBML and BioPAX files, providing three network
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bump x.y.z version to odd y following creation of RELEASE_3_16 branch

J Wokaty authored on 01/11/2022 15:09:39
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DESCRIPTION
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 Package: NetPathMiner
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-Version: 1.34.0
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+Version: 1.35.0
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 Date: 2014 onwards
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 Title: NetPathMiner for Biological Network Construction, Path Mining
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     and Visualization
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bump x.y.z version to even y prior to creation of RELEASE_3_16 branch

J Wokaty authored on 01/11/2022 15:09:39
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 Package: NetPathMiner
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-Version: 1.33.0
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+Version: 1.34.0
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 Date: 2014 onwards
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 Title: NetPathMiner for Biological Network Construction, Path Mining
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     and Visualization
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bump x.y.z version to odd y following creation of RELEASE_3_15 branch

Nitesh Turaga authored on 26/04/2022 15:19:39
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 Package: NetPathMiner
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-Version: 1.32.0
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+Version: 1.33.0
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 Date: 2014 onwards
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 Title: NetPathMiner for Biological Network Construction, Path Mining
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     and Visualization
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bump x.y.z version to even y prior to creation of RELEASE_3_15 branch

Nitesh Turaga authored on 26/04/2022 15:19:39
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 Package: NetPathMiner
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-Version: 1.31.0
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+Version: 1.32.0
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 Date: 2014 onwards
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 Title: NetPathMiner for Biological Network Construction, Path Mining
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     and Visualization
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bump x.y.z version to odd y following creation of RELEASE_3_14 branch

Nitesh Turaga authored on 26/10/2021 16:13:29
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 Package: NetPathMiner
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-Version: 1.30.0
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+Version: 1.31.0
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 Date: 2014 onwards
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 Title: NetPathMiner for Biological Network Construction, Path Mining
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     and Visualization
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bump x.y.z version to even y prior to creation of RELEASE_3_14 branch

Nitesh Turaga authored on 26/10/2021 16:13:29
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 Package: NetPathMiner
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-Version: 1.29.0
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+Version: 1.30.0
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 Date: 2014 onwards
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 Title: NetPathMiner for Biological Network Construction, Path Mining
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     and Visualization
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bump x.y.z version to odd y following creation of RELEASE_3_13 branch

Nitesh Turaga authored on 19/05/2021 16:04:54
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 Package: NetPathMiner
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-Version: 1.28.0
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+Version: 1.29.0
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 Date: 2014 onwards
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 Title: NetPathMiner for Biological Network Construction, Path Mining
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     and Visualization
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bump x.y.z version to even y prior to creation of RELEASE_3_13 branch

Nitesh Turaga authored on 19/05/2021 16:04:54
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 Package: NetPathMiner
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-Version: 1.27.0
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+Version: 1.28.0
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 Date: 2014 onwards
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 Title: NetPathMiner for Biological Network Construction, Path Mining
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     and Visualization
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bump x.y.z version to odd y following creation of RELEASE_3_12 branch

Nitesh Turaga authored on 27/10/2020 14:56:36
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 Package: NetPathMiner
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-Version: 1.26.0
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+Version: 1.27.0
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 Date: 2014 onwards
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 Title: NetPathMiner for Biological Network Construction, Path Mining
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     and Visualization
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bump x.y.z version to even y prior to creation of RELEASE_3_12 branch

Nitesh Turaga authored on 27/10/2020 14:56:36
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 Package: NetPathMiner
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-Version: 1.25.0
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+Version: 1.26.0
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 Date: 2014 onwards
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 Title: NetPathMiner for Biological Network Construction, Path Mining
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     and Visualization
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bump x.y.z version to odd y following creation of RELEASE_3_11 branch

Nitesh Turaga authored on 27/04/2020 18:40:20
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 Package: NetPathMiner
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-Version: 1.24.0
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+Version: 1.25.0
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 Date: 2014 onwards
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 Title: NetPathMiner for Biological Network Construction, Path Mining
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     and Visualization
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bump x.y.z version to even y prior to creation of RELEASE_3_11 branch

Nitesh Turaga authored on 27/04/2020 18:40:20
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 Package: NetPathMiner
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-Version: 1.23.0
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+Version: 1.24.0
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 Date: 2014 onwards
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 Title: NetPathMiner for Biological Network Construction, Path Mining
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     and Visualization
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bump x.y.z version to odd y after creation of RELEASE_3_10 branch

Nitesh Turaga authored on 29/10/2019 17:37:30
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 Package: NetPathMiner
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-Version: 1.22.0
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+Version: 1.23.0
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 Date: 2014 onwards
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 Title: NetPathMiner for Biological Network Construction, Path Mining
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     and Visualization
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bump x.y.z version to even y prior to creation of RELEASE_3_10 branch

Nitesh Turaga authored on 29/10/2019 17:08:57
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 Package: NetPathMiner
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-Version: 1.21.0
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+Version: 1.22.0
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 Date: 2014 onwards
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 Title: NetPathMiner for Biological Network Construction, Path Mining
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     and Visualization
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bump x.y.z versions to odd y after creation of RELEASE_3_9 branch

Nitesh Turaga authored on 02/05/2019 16:11:35
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 Package: NetPathMiner
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-Version: 1.20.0
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+Version: 1.21.0
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 Date: 2014 onwards
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 Title: NetPathMiner for Biological Network Construction, Path Mining
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     and Visualization
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bump x.y.z versions to even y prior to creation of RELEASE_3_9 branch

Nitesh Turaga authored on 02/05/2019 15:53:47
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 Package: NetPathMiner
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-Version: 1.19.5
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+Version: 1.20.0
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 Date: 2014 onwards
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 Title: NetPathMiner for Biological Network Construction, Path Mining
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address rd warnings

Ahmed Mohamed authored on 02/04/2019 21:32:19
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 Package: NetPathMiner
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-Version: 1.19.4
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+Version: 1.19.5
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 Date: 2014 onwards
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 Title: NetPathMiner for Biological Network Construction, Path Mining
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Vignette title correction

Ahmed Mohamed authored on 01/04/2019 06:41:42
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 Package: NetPathMiner
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-Version: 1.19.3
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+Version: 1.19.4
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 Date: 2014 onwards
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 Title: NetPathMiner for Biological Network Construction, Path Mining
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version pump

Ahmed Mohamed authored on 04/03/2019 22:03:56
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History View file @ 6122560
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 Package: NetPathMiner
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-Version: 1.19.2
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+Version: 1.19.3
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 Date: 2014 onwards
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 Title: NetPathMiner for Biological Network Construction, Path Mining
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     and Visualization
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version pump

Ahmed Mohamed authored on 02/03/2019 16:21:37
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 Package: NetPathMiner
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-Version: 1.19.1
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+Version: 1.19.2
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 Date: 2014 onwards
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 Title: NetPathMiner for Biological Network Construction, Path Mining
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Switch to Rmd vignette

Ahmed Mohamed authored on 02/03/2019 09:00:17
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DESCRIPTION
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22 22 
 Suggests:
23 23 
     rBiopaxParser (>= 2.1),
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     RCurl,
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-    graph
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+    graph,
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+    knitr, rmarkdown, BiocStyle
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+VignetteBuilder: knitr
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 License: GPL (>= 2)
27 29 
 URL: https://github.com/ahmohamed/NetPathMiner
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 NeedsCompilation: yes
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NEWS update, version pump 1.19.1

Ahmed Mohamed authored on 01/03/2019 06:32:08
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 Package: NetPathMiner
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-Version: 1.19.0
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+Version: 1.19.1
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 Date: 2014 onwards
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 Title: NetPathMiner for Biological Network Construction, Path Mining
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Docs update 1.19

Ahmed Mohamed authored on 01/03/2019 06:31:42
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DESCRIPTION
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 Biarch: TRUE
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 biocViews: GraphAndNetwork, Pathways, Network, Clustering,
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     Classification
33 
-RoxygenNote: 5.0.1
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+RoxygenNote: 6.1.1
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+Encoding: UTF-8
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bump x.y.z versions to odd y after creation of RELEASE_3_8 branch

vobencha authored on 30/10/2018 15:54:32
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 Package: NetPathMiner
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-Version: 1.18.0
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+Version: 1.19.0
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 Date: 2014 onwards
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 Title: NetPathMiner for Biological Network Construction, Path Mining
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     and Visualization
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bump x.y.z versions to even y prior to creation of RELEASE_3_8 branch

vobencha authored on 30/10/2018 15:41:54
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 Package: NetPathMiner
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-Version: 1.17.1
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+Version: 1.18.0
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 Date: 2014 onwards
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 Title: NetPathMiner for Biological Network Construction, Path Mining
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replace BiocInstaller biocLite mentions with BiocManager

LiNk-NY authored on 30/08/2018 17:53:13
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 Package: NetPathMiner
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-Version: 1.17.0
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+Version: 1.17.1
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 Date: 2014 onwards
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 Title: NetPathMiner for Biological Network Construction, Path Mining
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     and Visualization
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bump x.y.z versions to odd y after creation of RELEASE_3_7 branch

vobencha authored on 30/04/2018 14:41:40
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 Package: NetPathMiner
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-Version: 1.16.0
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+Version: 1.17.0
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 Date: 2014 onwards
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 Title: NetPathMiner for Biological Network Construction, Path Mining
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     and Visualization
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bump x.y.z versions to even y prior to creation of RELEASE_3_7 branch

vobencha authored on 30/04/2018 14:35:33
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 Package: NetPathMiner
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-Version: 1.15.0
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+Version: 1.16.0
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 Date: 2014 onwards
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 Title: NetPathMiner for Biological Network Construction, Path Mining
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     and Visualization
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bump x.y.z versions to odd y after creation of RELEASE_3_6 branch

Hervé Pagès authored on 30/10/2017 16:53:11
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 Package: NetPathMiner
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-Version: 1.14.0
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+Version: 1.15.0
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 Date: 2014 onwards
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 Title: NetPathMiner for Biological Network Construction, Path Mining
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     and Visualization
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bump x.y.z versions to even y prior to creation of RELEASE_3_6 branch

Hervé Pagès authored on 30/10/2017 16:40:15
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 Package: NetPathMiner
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-Version: 1.13.2
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+Version: 1.14.0
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 Date: 2014 onwards
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 Title: NetPathMiner for Biological Network Construction, Path Mining
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trigger retest

ahmohamed authored on 21/10/2017 15:47:33
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 Package: NetPathMiner
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-Version: 1.13.1
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+Version: 1.13.2
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 Date: 2014 onwards
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 Title: NetPathMiner for Biological Network Construction, Path Mining
5 5 
     and Visualization
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fix deprecated as_graphnel

git-svn-id: file:///home/git/hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/NetPathMiner@131922 bc3139a8-67e5-0310-9ffc-ced21a209358

Ahmed Mohamed authored on 15/08/2017 01:58:15
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 Package: NetPathMiner
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-Version: 1.13.0
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+Version: 1.13.1
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 Date: 2014 onwards
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 Title: NetPathMiner for Biological Network Construction, Path Mining
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     and Visualization
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bump x.y.z versions to odd y after creation of 3_5 branch

git-svn-id: file:///home/git/hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/NetPathMiner@129129 bc3139a8-67e5-0310-9ffc-ced21a209358

Herve Pages authored on 24/04/2017 19:50:57
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 Package: NetPathMiner
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-Version: 1.12.0
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+Version: 1.13.0
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 Date: 2014 onwards
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 Title: NetPathMiner for Biological Network Construction, Path Mining
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     and Visualization
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bump x.y.z versions to even y prior to creation of 3_5 branch

git-svn-id: file:///home/git/hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/NetPathMiner@129126 bc3139a8-67e5-0310-9ffc-ced21a209358

Herve Pages authored on 24/04/2017 19:25:24
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 Package: NetPathMiner
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-Version: 1.11.0
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+Version: 1.12.0
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 Date: 2014 onwards
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 Title: NetPathMiner for Biological Network Construction, Path Mining
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     and Visualization
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bump x.y.z versions to odd 'y' after creation of 3_4 branch

git-svn-id: file:///home/git/hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/NetPathMiner@122712 bc3139a8-67e5-0310-9ffc-ced21a209358

Herve Pages authored on 17/10/2016 19:10:43
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 Package: NetPathMiner
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-Version: 1.10.0
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+Version: 1.11.0
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 Date: 2014 onwards
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 Title: NetPathMiner for Biological Network Construction, Path Mining
5 5 
     and Visualization
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bump x.y.z versions to even 'y' prior to creation of 3_4 branch

git-svn-id: file:///home/git/hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/NetPathMiner@122710 bc3139a8-67e5-0310-9ffc-ced21a209358

Herve Pages authored on 17/10/2016 18:45:06
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 Package: NetPathMiner
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-Version: 1.9.1
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+Version: 1.10.0
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 Date: 2014 onwards
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 Title: NetPathMiner for Biological Network Construction, Path Mining
5 5 
     and Visualization
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remove RCytoscape dependency

git-svn-id: file:///home/git/hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/NetPathMiner@121119 bc3139a8-67e5-0310-9ffc-ced21a209358

Ahmed Mohamed authored on 19/09/2016 08:48:17
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 Package: NetPathMiner
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-Version: 1.9.0
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+Version: 1.9.1
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 Date: 2014 onwards
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 Title: NetPathMiner for Biological Network Construction, Path Mining
5 5 
     and Visualization
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@@ -22,8 +22,7 @@ Depends:
22 22 
 Suggests:
23 23 
     rBiopaxParser (>= 2.1),
24 24 
     RCurl,
25 
-    RCytoscape,
26 
-		graph
25 
+    graph
27 26 
 License: GPL (>= 2)
28 27 
 URL: https://github.com/ahmohamed/NetPathMiner
29 28 
 NeedsCompilation: yes
... ... 
@@ -31,3 +30,4 @@ SystemRequirements: libxml2, libSBML (>= 5.5)
31 30 
 Biarch: TRUE
32 31 
 biocViews: GraphAndNetwork, Pathways, Network, Clustering,
33 32 
     Classification
33 
+RoxygenNote: 5.0.1
Browse code

bump version after creating 3.3 branch

git-svn-id: file:///home/git/hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/NetPathMiner@117081 bc3139a8-67e5-0310-9ffc-ced21a209358

Dan Tenenbaum authored on 03/05/2016 21:30:44
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 Package: NetPathMiner
2 
-Version: 1.8.0
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+Version: 1.9.0
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 Date: 2014 onwards
4 4 
 Title: NetPathMiner for Biological Network Construction, Path Mining
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     and Visualization
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Bump versions prior to creation of 3.3 branch

git-svn-id: file:///home/git/hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/NetPathMiner@117079 bc3139a8-67e5-0310-9ffc-ced21a209358

Dan Tenenbaum authored on 03/05/2016 21:20:18
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 Package: NetPathMiner
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-Version: 1.7.0
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+Version: 1.8.0
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 Date: 2014 onwards
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 Title: NetPathMiner for Biological Network Construction, Path Mining
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     and Visualization
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Bumped version number of all packages after creation of 3.2 branch.

git-svn-id: file:///home/git/hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/NetPathMiner@109592 bc3139a8-67e5-0310-9ffc-ced21a209358

Dan Tenenbaum authored on 13/10/2015 19:59:53
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 Package: NetPathMiner
2 
-Version: 1.6.0
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+Version: 1.7.0
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 Date: 2014 onwards
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 Title: NetPathMiner for Biological Network Construction, Path Mining
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     and Visualization
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Bumped versions of all packages prior to creating 3.2 branch.

git-svn-id: file:///home/git/hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/NetPathMiner@109589 bc3139a8-67e5-0310-9ffc-ced21a209358

Dan Tenenbaum authored on 13/10/2015 19:36:05
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 Package: NetPathMiner
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-Version: 1.5.2
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+Version: 1.6.0
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 Date: 2014 onwards
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 Title: NetPathMiner for Biological Network Construction, Path Mining
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     and Visualization
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added garph depeds for as_graph_nel

git-svn-id: file:///home/git/hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/NetPathMiner@105781 bc3139a8-67e5-0310-9ffc-ced21a209358

Ahmed Mohamed authored on 02/07/2015 21:53:52
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1 1 
 Package: NetPathMiner
2 
-Version: 1.5.1
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 Title: NetPathMiner for Biological Network Construction, Path Mining
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22 22 
 Suggests:
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     rBiopaxParser (>= 2.1),
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     RCurl,
25 
-    RCytoscape
25 
+    RCytoscape,
26 
+		graph
26 27 
 License: GPL (>= 2)
27 28 
 URL: https://github.com/ahmohamed/NetPathMiner
28 29 
 NeedsCompilation: yes
Browse code

Fixes for igraph 1.0

git-svn-id: file:///home/git/hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/NetPathMiner@105691 bc3139a8-67e5-0310-9ffc-ced21a209358

Ahmed Mohamed authored on 30/06/2015 22:28:40
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 Package: NetPathMiner
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-Version: 1.5.0
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 Title: NetPathMiner for Biological Network Construction, Path Mining
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@@ -18,7 +18,7 @@ Description: NetPathMiner is a general framework for network path
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     and paths to aid manual investigation.
19 19 
 Depends:
20 20 
     R (>= 3.0.2),
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-    igraph (>= 0.6)
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+    igraph (>= 1.0)
22 22 
 Suggests:
23 23 
     rBiopaxParser (>= 2.1),
24 24 
     RCurl,
Browse code

Bump versions in trunk after creation of 3.1 branch.

git-svn-id: file:///home/git/hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/NetPathMiner@102594 bc3139a8-67e5-0310-9ffc-ced21a209358

Dan Tenenbaum authored on 16/04/2015 20:02:44
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 Package: NetPathMiner
2 
-Version: 1.4.0
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+Version: 1.5.0
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 Date: 2014 onwards
4 4 
 Title: NetPathMiner for Biological Network Construction, Path Mining
5 5 
     and Visualization
Browse code

Bump versions prior to creating 3.1 branch.

git-svn-id: file:///home/git/hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/NetPathMiner@102591 bc3139a8-67e5-0310-9ffc-ced21a209358

Dan Tenenbaum authored on 16/04/2015 19:42:01
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 Package: NetPathMiner
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-Version: 1.3.5
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+Version: 1.4.0
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4 4 
 Title: NetPathMiner for Biological Network Construction, Path Mining
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     and Visualization
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moving CITATION to inst

git-svn-id: file:///home/git/hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/NetPathMiner@102319 bc3139a8-67e5-0310-9ffc-ced21a209358

Ahmed Mohamed authored on 11/04/2015 06:28:49
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 Package: NetPathMiner
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-Version: 1.3.4
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+Version: 1.3.5
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 Date: 2014 onwards
4 4 
 Title: NetPathMiner for Biological Network Construction, Path Mining
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     and Visualization
Browse code

pump z version

git-svn-id: file:///home/git/hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/NetPathMiner@102157 bc3139a8-67e5-0310-9ffc-ced21a209358

Ahmed Mohamed authored on 09/04/2015 05:41:12
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1 1 
 Package: NetPathMiner
2 
-Version: 1.3.3
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+Version: 1.3.4
3 3 
 Date: 2014 onwards
4 4 
 Title: NetPathMiner for Biological Network Construction, Path Mining
5 5 
     and Visualization
Browse code

donnt run exmaples to avoid deps

git-svn-id: file:///home/git/hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/NetPathMiner@101048 bc3139a8-67e5-0310-9ffc-ced21a209358

Ahmed Mohamed authored on 23/03/2015 18:19:18
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1 1 
 Package: NetPathMiner
2 
-Version: 1.3.2
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+Version: 1.3.3
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 Date: 2014 onwards
4 4 
 Title: NetPathMiner for Biological Network Construction, Path Mining
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     and Visualization
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@@ -22,14 +22,11 @@ Depends:
22 22 
 Suggests:
23 23 
     rBiopaxParser (>= 2.1),
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     RCurl,
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-    RCytoscape,
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-    GSEABase,
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-    clipper,
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-    graphite,
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-    ALL
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-License: NA
31 
-URL: NA
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-NeedsCompilation: NA
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-SystemRequirements: NA
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-Biarch: NA
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-biocViews: NA
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+    RCytoscape
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+License: GPL (>= 2)
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+URL: https://github.com/ahmohamed/NetPathMiner
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+NeedsCompilation: yes
29 
+SystemRequirements: libxml2, libSBML (>= 5.5)
30 
+Biarch: TRUE
31 
+biocViews: GraphAndNetwork, Pathways, Network, Clustering,
32 
+    Classification
Browse code

fixed donntest warnings

git-svn-id: file:///home/git/hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/NetPathMiner@100983 bc3139a8-67e5-0310-9ffc-ced21a209358

Ahmed Mohamed authored on 22/03/2015 05:56:59
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 Package: NetPathMiner
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-Version: 1.3.1
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+Version: 1.3.2
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 Date: 2014 onwards
4 4 
 Title: NetPathMiner for Biological Network Construction, Path Mining
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     and Visualization
... ... 
@@ -22,11 +22,14 @@ Depends:
22 22 
 Suggests:
23 23 
     rBiopaxParser (>= 2.1),
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     RCurl,
25 
-    RCytoscape
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-License: GPL (>= 2)
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-URL: https://github.com/ahmohamed/NetPathMiner
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-NeedsCompilation: yes
29 
-SystemRequirements: libxml2, libSBML (>= 5.5)
30 
-Biarch: TRUE
31 
-biocViews: GraphAndNetwork, Pathways, Network, Clustering,
32 
-    Classification
25 
+    RCytoscape,
26 
+    GSEABase,
27 
+    clipper,
28 
+    graphite,
29 
+    ALL
30 
+License: NA
31 
+URL: NA
32 
+NeedsCompilation: NA
33 
+SystemRequirements: NA
34 
+Biarch: NA
35 
+biocViews: NA
Browse code

SBML2igraph fix

git-svn-id: file:///home/git/hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/NetPathMiner@97651 bc3139a8-67e5-0310-9ffc-ced21a209358

Ahmed Mohamed authored on 15/12/2014 07:51:00
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 Package: NetPathMiner
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-Version: 1.3.0
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+Version: 1.3.1
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 Date: 2014 onwards
4 4 
 Title: NetPathMiner for Biological Network Construction, Path Mining
5 5 
     and Visualization
Browse code

Bumping versions after creating 3.0 release branch.

git-svn-id: file:///home/git/hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/NetPathMiner@95443 bc3139a8-67e5-0310-9ffc-ced21a209358

Dan Tenenbaum authored on 13/10/2014 21:47:41
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 Package: NetPathMiner
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-Version: 1.2.0
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+Version: 1.3.0
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 Date: 2014 onwards
4 4 
 Title: NetPathMiner for Biological Network Construction, Path Mining
5 5 
     and Visualization
Browse code

Bump package versions prior to creating the 3.0 branch.

git-svn-id: file:///home/git/hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/NetPathMiner@95439 bc3139a8-67e5-0310-9ffc-ced21a209358

Dan Tenenbaum authored on 13/10/2014 21:38:33
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 Package: NetPathMiner
2 
-Version: 1.1.6
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+Version: 1.2.0
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 Date: 2014 onwards
4 4 
 Title: NetPathMiner for Biological Network Construction, Path Mining
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     and Visualization
Browse code

several updates

git-svn-id: file:///home/git/hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/NetPathMiner@91938 bc3139a8-67e5-0310-9ffc-ced21a209358

Ahmed Mohamed authored on 27/06/2014 14:07:22
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1 1 
 Package: NetPathMiner
2 
-Version: 1.1.3
2 
+Version: 1.1.6
3 3 
 Date: 2014 onwards
4 4 
 Title: NetPathMiner for Biological Network Construction, Path Mining
5 
-        and Visualization
5 
+    and Visualization
6 6 
 Author: Ahmed Mohamed <mohamed@kuicr.kyoto-u.ac.jp>, Tim Hancock
7 
-        <timothy.hancock@kuicr.kyoto-u.ac.jp>, Ichigaku Takigawa
8 
-        <takigawa@kuicr.kyoto-u.ac.jp>, Nicolas Wicker
9 
-        <nicolas.wicker@unistra.fr>
7 
+    <timothy.hancock@kuicr.kyoto-u.ac.jp>, Ichigaku Takigawa
8 
+    <takigawa@kuicr.kyoto-u.ac.jp>, Nicolas Wicker
9 
+    <nicolas.wicker@unistra.fr>
10 10 
 Maintainer: Ahmed Mohamed <mohamed@kuicr.kyoto-u.ac.jp>
11 11 
 Description: NetPathMiner is a general framework for network path
12 
-        mining using genome-scale networks. It constructs networks from
13 
-        KGML, SBML and BioPAX files, providing three network
14 
-        representations, metabolic, reaction and gene representations.
15 
-        NetPathMiner finds active paths and applies machine learning
16 
-        methods to summarize found paths for easy interpretation. It
17 
-        also provides static and interactive visualizations of networks
18 
-        and paths to aid manual investigation.
19 
-Depends: R (>= 3.0.2), igraph (>= 0.6)
20 
-Suggests: rBiopaxParser (>= 2.1), RCurl, RCytoscape
12 
+    mining using genome-scale networks. It constructs networks from
13 
+    KGML, SBML and BioPAX files, providing three network
14 
+    representations, metabolic, reaction and gene representations.
15 
+    NetPathMiner finds active paths and applies machine learning
16 
+    methods to summarize found paths for easy interpretation. It
17 
+    also provides static and interactive visualizations of networks
18 
+    and paths to aid manual investigation.
19 
+Depends:
20 
+    R (>= 3.0.2),
21 
+    igraph (>= 0.6)
22 
+Suggests:
23 
+    rBiopaxParser (>= 2.1),
24 
+    RCurl,
25 
+    RCytoscape
21 26 
 License: GPL (>= 2)
22 27 
 URL: https://github.com/ahmohamed/NetPathMiner
23 28 
 NeedsCompilation: yes
24 29 
 SystemRequirements: libxml2, libSBML (>= 5.5)
25 30 
 Biarch: TRUE
26 31 
 biocViews: GraphAndNetwork, Pathways, Network, Clustering,
27 
-        Classification
32 
+    Classification
Browse code

pathRanker critical bug fix

git-svn-id: file:///home/git/hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/NetPathMiner@88904 bc3139a8-67e5-0310-9ffc-ced21a209358

Ahmed Mohamed authored on 14/04/2014 02:31:59
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 Package: NetPathMiner
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-Version: 1.1.2
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+Version: 1.1.3
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 Date: 2014 onwards
4 4 
 Title: NetPathMiner for Biological Network Construction, Path Mining
5 5 
         and Visualization
Browse code

Docs update

git-svn-id: file:///home/git/hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/NetPathMiner@88884 bc3139a8-67e5-0310-9ffc-ced21a209358

Ahmed Mohamed authored on 13/04/2014 04:23:01
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 Package: NetPathMiner
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-Version: 1.1.1
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+Version: 1.1.2
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 Date: 2014 onwards
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 Title: NetPathMiner for Biological Network Construction, Path Mining
5 5 
         and Visualization
Browse code

Temporarily revert to a version that works with earlier libSBML.

git-svn-id: file:///home/git/hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/NetPathMiner@88882 bc3139a8-67e5-0310-9ffc-ced21a209358

Dan Tenenbaum authored on 12/04/2014 22:53:10
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 Package: NetPathMiner
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-Version: 1.1.0
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+Version: 1.1.1
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 Date: 2014 onwards
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 Title: NetPathMiner for Biological Network Construction, Path Mining
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         and Visualization
Browse code

Second version bump after creating 2.14 release branch.

git-svn-id: file:///home/git/hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/NetPathMiner@88840 bc3139a8-67e5-0310-9ffc-ced21a209358

Dan Tenenbaum authored on 11/04/2014 21:21:21
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 Package: NetPathMiner
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-Version: 1.0.0
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First version bump prior to creating 2.14 branch.

git-svn-id: file:///home/git/hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/NetPathMiner@88838 bc3139a8-67e5-0310-9ffc-ced21a209358

Dan Tenenbaum authored on 11/04/2014 21:07:21
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 Package: NetPathMiner
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-Version: 0.99.4
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 Title: NetPathMiner for Biological Network Construction, Path Mining
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         and Visualization
Browse code

Adds MeSHDbi meshr and NetPathMiner

git-svn-id: file:///home/git/hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/NetPathMiner@88817 bc3139a8-67e5-0310-9ffc-ced21a209358

Marc Carlson authored on 11/04/2014 17:37:59
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History View file @ 0cd1148
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new file mode 100644
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+Package: NetPathMiner
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+Version: 0.99.4
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+Date: 2014 onwards
4 
+Title: NetPathMiner for Biological Network Construction, Path Mining
5 
+        and Visualization
6 
+Author: Ahmed Mohamed <mohamed@kuicr.kyoto-u.ac.jp>, Tim Hancock
7 
+        <timothy.hancock@kuicr.kyoto-u.ac.jp>, Ichigaku Takigawa
8 
+        <takigawa@kuicr.kyoto-u.ac.jp>, Nicolas Wicker
9 
+        <nicolas.wicker@unistra.fr>
10 
+Maintainer: Ahmed Mohamed <mohamed@kuicr.kyoto-u.ac.jp>
11 
+Description: NetPathMiner is a general framework for network path
12 
+        mining using genome-scale networks. It constructs networks from
13 
+        KGML, SBML and BioPAX files, providing three network
14 
+        representations, metabolic, reaction and gene representations.
15 
+        NetPathMiner finds active paths and applies machine learning
16 
+        methods to summarize found paths for easy interpretation. It
17 
+        also provides static and interactive visualizations of networks
18 
+        and paths to aid manual investigation.
19 
+Depends: R (>= 3.0.2), igraph (>= 0.6)
20 
+Suggests: rBiopaxParser (>= 2.1), RCurl, RCytoscape
21 
+License: GPL (>= 2)
22 
+URL: https://github.com/ahmohamed/NetPathMiner
23 
+NeedsCompilation: yes
24 
+SystemRequirements: libxml2, libSBML (>= 5.5)
25 
+Biarch: TRUE
26 
+biocViews: GraphAndNetwork, Pathways, Network, Clustering,
27 
+        Classification