Mercurial > repos > devteam > package_emboss_5_0_0

annotate tool_dependencies.xml @ 0:9fd501d0f295 draft

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Uploaded tool dependency definition that downloads and installs EMBOSS 5.0.0 and PHYLIP 3.6b.
author devteam
date Thu, 20 Jun 2013 15:18:09 -0400
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children f117a9d9dc9c
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9fd501d0f295 Uploaded tool dependency definition that downloads and installs EMBOSS 5.0.0 and PHYLIP 3.6b.
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1 <?xml version="1.0"?>
9fd501d0f295 Uploaded tool dependency definition that downloads and installs EMBOSS 5.0.0 and PHYLIP 3.6b.
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2 <tool_dependency>
9fd501d0f295 Uploaded tool dependency definition that downloads and installs EMBOSS 5.0.0 and PHYLIP 3.6b.
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3 <package name="libx11" version="1.5.0">
9fd501d0f295 Uploaded tool dependency definition that downloads and installs EMBOSS 5.0.0 and PHYLIP 3.6b.
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4 <repository changeset_revision="90c1cbb8095a" name="package_x11_client_1_5_proto_7_0" owner="devteam" prior_installation_required="True" toolshed="http://testtoolshed.g2.bx.psu.edu" />
9fd501d0f295 Uploaded tool dependency definition that downloads and installs EMBOSS 5.0.0 and PHYLIP 3.6b.
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5 </package>
9fd501d0f295 Uploaded tool dependency definition that downloads and installs EMBOSS 5.0.0 and PHYLIP 3.6b.
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6 <package name="emboss" version="5.0.0">
9fd501d0f295 Uploaded tool dependency definition that downloads and installs EMBOSS 5.0.0 and PHYLIP 3.6b.
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7 <install version="1.0">
9fd501d0f295 Uploaded tool dependency definition that downloads and installs EMBOSS 5.0.0 and PHYLIP 3.6b.
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8 <actions>
9fd501d0f295 Uploaded tool dependency definition that downloads and installs EMBOSS 5.0.0 and PHYLIP 3.6b.
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9 <action type="download_by_url">ftp://emboss.open-bio.org/pub/EMBOSS/old/5.0.0/EMBOSS-5.0.0.tar.gz</action>
9fd501d0f295 Uploaded tool dependency definition that downloads and installs EMBOSS 5.0.0 and PHYLIP 3.6b.
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10 <action type="set_environment_for_install">
9fd501d0f295 Uploaded tool dependency definition that downloads and installs EMBOSS 5.0.0 and PHYLIP 3.6b.
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11 <repository changeset_revision="90c1cbb8095a" name="package_x11_client_1_5_proto_7_0" owner="devteam" prior_installation_required="True" toolshed="http://testtoolshed.g2.bx.psu.edu">
9fd501d0f295 Uploaded tool dependency definition that downloads and installs EMBOSS 5.0.0 and PHYLIP 3.6b.
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12 <package name="libx11" version="1.5.0" />
9fd501d0f295 Uploaded tool dependency definition that downloads and installs EMBOSS 5.0.0 and PHYLIP 3.6b.
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13 </repository>
9fd501d0f295 Uploaded tool dependency definition that downloads and installs EMBOSS 5.0.0 and PHYLIP 3.6b.
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14 </action>
9fd501d0f295 Uploaded tool dependency definition that downloads and installs EMBOSS 5.0.0 and PHYLIP 3.6b.
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15 <action type="shell_command">
9fd501d0f295 Uploaded tool dependency definition that downloads and installs EMBOSS 5.0.0 and PHYLIP 3.6b.
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16 if [ -z $X11_LIB_DIR ] || [ -z $X11_INCLUDE_DIR ]; then
9fd501d0f295 Uploaded tool dependency definition that downloads and installs EMBOSS 5.0.0 and PHYLIP 3.6b.
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17 ./configure --prefix=$INSTALL_DIR
9fd501d0f295 Uploaded tool dependency definition that downloads and installs EMBOSS 5.0.0 and PHYLIP 3.6b.
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18 else
9fd501d0f295 Uploaded tool dependency definition that downloads and installs EMBOSS 5.0.0 and PHYLIP 3.6b.
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19 ./configure --prefix=$INSTALL_DIR --x-includes=$X11_INCLUDE_DIR --x-libraries=$X11_LIB_DIR
9fd501d0f295 Uploaded tool dependency definition that downloads and installs EMBOSS 5.0.0 and PHYLIP 3.6b.
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20 fi
9fd501d0f295 Uploaded tool dependency definition that downloads and installs EMBOSS 5.0.0 and PHYLIP 3.6b.
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21 </action>
9fd501d0f295 Uploaded tool dependency definition that downloads and installs EMBOSS 5.0.0 and PHYLIP 3.6b.
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22 <action type="shell_command">make</action>
9fd501d0f295 Uploaded tool dependency definition that downloads and installs EMBOSS 5.0.0 and PHYLIP 3.6b.
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23 <action type="shell_command">make install</action>
9fd501d0f295 Uploaded tool dependency definition that downloads and installs EMBOSS 5.0.0 and PHYLIP 3.6b.
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24 </actions>
9fd501d0f295 Uploaded tool dependency definition that downloads and installs EMBOSS 5.0.0 and PHYLIP 3.6b.
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25 <actions>
9fd501d0f295 Uploaded tool dependency definition that downloads and installs EMBOSS 5.0.0 and PHYLIP 3.6b.
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26 <action type="download_by_url">ftp://emboss.open-bio.org/pub/EMBOSS/old/5.0.0/PHYLIP-3.6b.tar.gz</action>
9fd501d0f295 Uploaded tool dependency definition that downloads and installs EMBOSS 5.0.0 and PHYLIP 3.6b.
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27 <action type="set_environment_for_install">
9fd501d0f295 Uploaded tool dependency definition that downloads and installs EMBOSS 5.0.0 and PHYLIP 3.6b.
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28 <repository changeset_revision="90c1cbb8095a" name="package_x11_client_1_5_proto_7_0" owner="devteam" prior_installation_required="True" toolshed="http://testtoolshed.g2.bx.psu.edu">
9fd501d0f295 Uploaded tool dependency definition that downloads and installs EMBOSS 5.0.0 and PHYLIP 3.6b.
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29 <package name="libx11" version="1.5.0" />
9fd501d0f295 Uploaded tool dependency definition that downloads and installs EMBOSS 5.0.0 and PHYLIP 3.6b.
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30 </repository>
9fd501d0f295 Uploaded tool dependency definition that downloads and installs EMBOSS 5.0.0 and PHYLIP 3.6b.
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31 </action>
9fd501d0f295 Uploaded tool dependency definition that downloads and installs EMBOSS 5.0.0 and PHYLIP 3.6b.
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32 <action type="shell_command">
9fd501d0f295 Uploaded tool dependency definition that downloads and installs EMBOSS 5.0.0 and PHYLIP 3.6b.
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33 if [ -z $X11_LIB_DIR ] || [ -z $X11_INCLUDE_DIR ]; then
9fd501d0f295 Uploaded tool dependency definition that downloads and installs EMBOSS 5.0.0 and PHYLIP 3.6b.
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34 ./configure --prefix=$INSTALL_DIR
9fd501d0f295 Uploaded tool dependency definition that downloads and installs EMBOSS 5.0.0 and PHYLIP 3.6b.
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35 else
9fd501d0f295 Uploaded tool dependency definition that downloads and installs EMBOSS 5.0.0 and PHYLIP 3.6b.
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36 ./configure --prefix=$INSTALL_DIR --x-includes=$X11_INCLUDE_DIR --x-libraries=$X11_LIB_DIR CFLAGS='-I$INSTALL_DIR/include'
9fd501d0f295 Uploaded tool dependency definition that downloads and installs EMBOSS 5.0.0 and PHYLIP 3.6b.
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37 fi
9fd501d0f295 Uploaded tool dependency definition that downloads and installs EMBOSS 5.0.0 and PHYLIP 3.6b.
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38 </action>
9fd501d0f295 Uploaded tool dependency definition that downloads and installs EMBOSS 5.0.0 and PHYLIP 3.6b.
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39 <action type="shell_command">make</action>
9fd501d0f295 Uploaded tool dependency definition that downloads and installs EMBOSS 5.0.0 and PHYLIP 3.6b.
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40 <action type="shell_command">make install</action>
9fd501d0f295 Uploaded tool dependency definition that downloads and installs EMBOSS 5.0.0 and PHYLIP 3.6b.
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41 </actions>
9fd501d0f295 Uploaded tool dependency definition that downloads and installs EMBOSS 5.0.0 and PHYLIP 3.6b.
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42 </install>
9fd501d0f295 Uploaded tool dependency definition that downloads and installs EMBOSS 5.0.0 and PHYLIP 3.6b.
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43 <readme>
9fd501d0f295 Uploaded tool dependency definition that downloads and installs EMBOSS 5.0.0 and PHYLIP 3.6b.
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44 These links provide information for building the Emboss package in most environments.
9fd501d0f295 Uploaded tool dependency definition that downloads and installs EMBOSS 5.0.0 and PHYLIP 3.6b.
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45
9fd501d0f295 Uploaded tool dependency definition that downloads and installs EMBOSS 5.0.0 and PHYLIP 3.6b.
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46 System requirements
9fd501d0f295 Uploaded tool dependency definition that downloads and installs EMBOSS 5.0.0 and PHYLIP 3.6b.
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47 http://emboss.sourceforge.net/download/#Requirements
9fd501d0f295 Uploaded tool dependency definition that downloads and installs EMBOSS 5.0.0 and PHYLIP 3.6b.
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48
9fd501d0f295 Uploaded tool dependency definition that downloads and installs EMBOSS 5.0.0 and PHYLIP 3.6b.
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49 Platform-dependent notes
9fd501d0f295 Uploaded tool dependency definition that downloads and installs EMBOSS 5.0.0 and PHYLIP 3.6b.
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50 http://emboss.sourceforge.net/download/#Platforms
9fd501d0f295 Uploaded tool dependency definition that downloads and installs EMBOSS 5.0.0 and PHYLIP 3.6b.
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51 </readme>
9fd501d0f295 Uploaded tool dependency definition that downloads and installs EMBOSS 5.0.0 and PHYLIP 3.6b.
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52 </package>
9fd501d0f295 Uploaded tool dependency definition that downloads and installs EMBOSS 5.0.0 and PHYLIP 3.6b.
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53 </tool_dependency>