Mercurial > repos > ebi-gxa > garnett_get_std_output

annotate garnett_macros.xml @ 3:5f05e2901299 draft default tip

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"planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 660486ba0e1ef2f0195e7c6f75448221ba4640f7"
author ebi-gxa
date Tue, 28 Apr 2020 11:32:08 -0400
parents 07deabaded2b
children
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40b587883bd9 "planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 4c3dfa7bbd82d702e7e8187c7556f3289804cb49"
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1 <macros>
40b587883bd9 "planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 4c3dfa7bbd82d702e7e8187c7556f3289804cb49"
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2 <token name="@TOOL_VERSION@">0.2.8</token>
40b587883bd9 "planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 4c3dfa7bbd82d702e7e8187c7556f3289804cb49"
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3 <token name="@HELP@">More information can be found at https://cole-trapnell-lab.github.io/garnett/docs/</token>
40b587883bd9 "planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 4c3dfa7bbd82d702e7e8187c7556f3289804cb49"
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4 <token name="@PROFILE@">18.01</token>
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5 <xml name="requirements">
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6 <requirements>
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7 <requirement type="package" version="0.0.5">garnett-cli</requirement>
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8 <yield/>
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9 </requirements>
40b587883bd9 "planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 4c3dfa7bbd82d702e7e8187c7556f3289804cb49"
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10 </xml>
40b587883bd9 "planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 4c3dfa7bbd82d702e7e8187c7556f3289804cb49"
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11 <xml name="version">
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12 <version_command><![CDATA[
40b587883bd9 "planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 4c3dfa7bbd82d702e7e8187c7556f3289804cb49"
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13 echo $(R --version | grep version | grep -v GNU)", garnett version" $(R --vanilla --slave -e "library(garnett); cat(sessionInfo()\$otherPkgs\$garnett\$Version)" 2> /dev/null | grep -v -i "WARNING: ")
40b587883bd9 "planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 4c3dfa7bbd82d702e7e8187c7556f3289804cb49"
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14 ]]></version_command>
40b587883bd9 "planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 4c3dfa7bbd82d702e7e8187c7556f3289804cb49"
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15 </xml>
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16 <token name="@VERSION_HISTORY@"><![CDATA[
40b587883bd9 "planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 4c3dfa7bbd82d702e7e8187c7556f3289804cb49"
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17 **Version history**
40b587883bd9 "planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 4c3dfa7bbd82d702e7e8187c7556f3289804cb49"
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18 0.2.8+galaxy0: Initial contribution. Andrey Solovyev, Expression Atlas team https://www.ebi.ac.uk/gxa/home at EMBL-EBI https://www.ebi.ac.uk/.
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07deabaded2b "planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 85476ee7f3b1d96e9d0afb972af1aaa67d990ce4"
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19 0.2.8+galaxy1: Minor improvements and bug fixes in IO.
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20 ]]></token>
40b587883bd9 "planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 4c3dfa7bbd82d702e7e8187c7556f3289804cb49"
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21 <xml name="citations">
40b587883bd9 "planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 4c3dfa7bbd82d702e7e8187c7556f3289804cb49"
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22 <citations>
40b587883bd9 "planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 4c3dfa7bbd82d702e7e8187c7556f3289804cb49"
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23 <citation type="bibtex">
40b587883bd9 "planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 4c3dfa7bbd82d702e7e8187c7556f3289804cb49"
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24 @article{,
1
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25 url = {https://doi.org/10.1038/s41592-019-0535-3},
0
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26 author = {Hannah A. Pliner and Jay Shendure and Cole Trapnell},
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27 title = {Supervised classification enables rapid annotation of cell atlases},
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28 journal = {Nature Methods}
40b587883bd9 "planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 4c3dfa7bbd82d702e7e8187c7556f3289804cb49"
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29 }
40b587883bd9 "planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 4c3dfa7bbd82d702e7e8187c7556f3289804cb49"
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30 </citation>
40b587883bd9 "planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 4c3dfa7bbd82d702e7e8187c7556f3289804cb49"
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31 <citation type="bibtex">
40b587883bd9 "planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 4c3dfa7bbd82d702e7e8187c7556f3289804cb49"
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32 @misc{githubgarnett-cli.git,
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33 author = {Andrey Solovyev, EBI Gene Expression Team},
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34 year = {2019},
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35 title = {garnett-cli: command line interface for Garnett tool},
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36 publisher = {GitHub},
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37 journal = {GitHub repository},
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38 url = {https://github.com/ebi-gene-expression-group/garnett-cli.git},
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39 }
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40 </citation>
40b587883bd9 "planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 4c3dfa7bbd82d702e7e8187c7556f3289804cb49"
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41 <yield />
1
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42 <citation type="doi">10.1101/2020.04.08.032698</citation>
0
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43 </citations>
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44 </xml>
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45 </macros>