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annotate tool_dependencies.xml @ 7:d28dad5e2c02 draft

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debugging automatic SRA build and install
author Matt Shirley <mdshw5@gmail.com>
date Mon, 17 Jun 2013 13:37:47 -0400
parents 3354ec70c0ff
children e40b9582d80f
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d529eff98834 tool dependencies for automated sra_sdk download and compilation
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1 <?xml version="1.0"?>
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2 <tool_dependency>
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3 <package name="sra_toolkit" version="2.3.2-4">
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4 <install version="1.0">
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5 <actions>
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6 <action type="download_by_url">http://ftp-trace.ncbi.nlm.nih.gov/sra/sdk/2.3.2-4/sra_sdk-2.3.2-4.tar.gz</action>
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7 <action type="shell_command">make release</action>
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d28dad5e2c02 debugging automatic SRA build and install
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8 <action type="shell_command">make dynamic</action>
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9 <action type="shell_command">make</action>
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10 <action type="shell_command">mv bin* $INSTALL_DIR/bin</action>
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11 <action type="set_environment"><environment_variable name="PATH" action="prepend_to">$INSTALL_DIR/bin</environment_variable></action>
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12 </actions>
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13 </install>
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14 <readme>Tools from NCBI SRA Toolkit for extracting FASTQ and SAM format reads from SRA format archives. Various tools for working with SRA from NCBI.
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15 This software release was designed to run under Linux, MacOSX operating systems on Intel x86-compatible 32 and 64 bit architectures.
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16 Build Requirements:
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17 ar
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18 bash
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19 make
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20 gcc, g++
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21 libxml2
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22 libcurl
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23 zlib
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24 </readme>
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25 </package>
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26 </tool_dependency>