Mercurial > repos > sanbi-uwc > data_manager_fetch_refseq

annotate data_manager_conf.xml @ 2:a4ee45e7237b draft

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planemo upload for repository https://github.com/pvanheus/refseq_fasta_data_manager commit a0125981706495e0a8be4fafe2eb1af3f0cfdaa3-dirty
author sanbi-uwc
date Fri, 07 Sep 2018 18:08:23 -0400
parents cfe6cd521835
children efe0f451c40f
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cfe6cd521835 planemo upload for repository https://github.com/pvanheus/refseq_fasta_data_manager commit cfd2aa18826b938402ccfc6003f1793886001202-dirty
sanbi-uwc
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diff changeset
1 <?xml version="1.0"?>
cfe6cd521835 planemo upload for repository https://github.com/pvanheus/refseq_fasta_data_manager commit cfd2aa18826b938402ccfc6003f1793886001202-dirty
sanbi-uwc
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2 <data_managers>
cfe6cd521835 planemo upload for repository https://github.com/pvanheus/refseq_fasta_data_manager commit cfd2aa18826b938402ccfc6003f1793886001202-dirty
sanbi-uwc
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3 <data_manager tool_file="data_manager/fetch_refseq.xml" id="fetch_genome_fetch_refseq">
cfe6cd521835 planemo upload for repository https://github.com/pvanheus/refseq_fasta_data_manager commit cfd2aa18826b938402ccfc6003f1793886001202-dirty
sanbi-uwc
parents:
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4 <data_table name="all_fasta">
cfe6cd521835 planemo upload for repository https://github.com/pvanheus/refseq_fasta_data_manager commit cfd2aa18826b938402ccfc6003f1793886001202-dirty
sanbi-uwc
parents:
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5 <output>
cfe6cd521835 planemo upload for repository https://github.com/pvanheus/refseq_fasta_data_manager commit cfd2aa18826b938402ccfc6003f1793886001202-dirty
sanbi-uwc
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6 <column name="value" />
cfe6cd521835 planemo upload for repository https://github.com/pvanheus/refseq_fasta_data_manager commit cfd2aa18826b938402ccfc6003f1793886001202-dirty
sanbi-uwc
parents:
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7 <column name="dbkey" />
cfe6cd521835 planemo upload for repository https://github.com/pvanheus/refseq_fasta_data_manager commit cfd2aa18826b938402ccfc6003f1793886001202-dirty
sanbi-uwc
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8 <column name="name" />
cfe6cd521835 planemo upload for repository https://github.com/pvanheus/refseq_fasta_data_manager commit cfd2aa18826b938402ccfc6003f1793886001202-dirty
sanbi-uwc
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9 <column name="path" output_ref="out_file" >
cfe6cd521835 planemo upload for repository https://github.com/pvanheus/refseq_fasta_data_manager commit cfd2aa18826b938402ccfc6003f1793886001202-dirty
sanbi-uwc
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10 <move type="file">
cfe6cd521835 planemo upload for repository https://github.com/pvanheus/refseq_fasta_data_manager commit cfd2aa18826b938402ccfc6003f1793886001202-dirty
sanbi-uwc
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11 <source>${path}</source>
cfe6cd521835 planemo upload for repository https://github.com/pvanheus/refseq_fasta_data_manager commit cfd2aa18826b938402ccfc6003f1793886001202-dirty
sanbi-uwc
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12 <target base="${GALAXY_DATA_MANAGER_DATA_PATH}">${dbkey}/seq/${path}</target>
cfe6cd521835 planemo upload for repository https://github.com/pvanheus/refseq_fasta_data_manager commit cfd2aa18826b938402ccfc6003f1793886001202-dirty
sanbi-uwc
parents:
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13 </move>
cfe6cd521835 planemo upload for repository https://github.com/pvanheus/refseq_fasta_data_manager commit cfd2aa18826b938402ccfc6003f1793886001202-dirty
sanbi-uwc
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14 <value_translation>${GALAXY_DATA_MANAGER_DATA_PATH}/${dbkey}/seq/${path}</value_translation>
cfe6cd521835 planemo upload for repository https://github.com/pvanheus/refseq_fasta_data_manager commit cfd2aa18826b938402ccfc6003f1793886001202-dirty
sanbi-uwc
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15 <value_translation type="function">abspath</value_translation>
cfe6cd521835 planemo upload for repository https://github.com/pvanheus/refseq_fasta_data_manager commit cfd2aa18826b938402ccfc6003f1793886001202-dirty
sanbi-uwc
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16 </column>
cfe6cd521835 planemo upload for repository https://github.com/pvanheus/refseq_fasta_data_manager commit cfd2aa18826b938402ccfc6003f1793886001202-dirty
sanbi-uwc
parents:
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17 </output>
cfe6cd521835 planemo upload for repository https://github.com/pvanheus/refseq_fasta_data_manager commit cfd2aa18826b938402ccfc6003f1793886001202-dirty
sanbi-uwc
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18 </data_table>
cfe6cd521835 planemo upload for repository https://github.com/pvanheus/refseq_fasta_data_manager commit cfd2aa18826b938402ccfc6003f1793886001202-dirty
sanbi-uwc
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19 </data_manager>
cfe6cd521835 planemo upload for repository https://github.com/pvanheus/refseq_fasta_data_manager commit cfd2aa18826b938402ccfc6003f1793886001202-dirty
sanbi-uwc
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20 </data_managers>