annotate scpred_macros.xml @ 5:eca76dd511f4 draft

"planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit bb88d0eb9c193518eb0d05321e3458a10212d3ab"
author ebi-gxa
date Fri, 14 Aug 2020 10:47:23 -0400
parents fd06ab29487f
children d071810dc6db
Ignore whitespace changes - Everywhere: Within whitespace: At end of lines:
rev   line source
0
c54f0e1a3bd8 "planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 6ea13bbd7294b94201a5d776307b3f0742847db1"
ebi-gxa
parents:
diff changeset
1 <macros>
c54f0e1a3bd8 "planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 6ea13bbd7294b94201a5d776307b3f0742847db1"
ebi-gxa
parents:
diff changeset
2 <token name="@TOOL_VERSION@">1.0.0</token>
c54f0e1a3bd8 "planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 6ea13bbd7294b94201a5d776307b3f0742847db1"
ebi-gxa
parents:
diff changeset
3 <token name="@HELP@">More information can be found at https://joseah.github.io/post/introduction-to-scpred/</token>
c54f0e1a3bd8 "planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 6ea13bbd7294b94201a5d776307b3f0742847db1"
ebi-gxa
parents:
diff changeset
4 <token name="@PROFILE@">18.01</token>
c54f0e1a3bd8 "planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 6ea13bbd7294b94201a5d776307b3f0742847db1"
ebi-gxa
parents:
diff changeset
5 <xml name="requirements">
c54f0e1a3bd8 "planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 6ea13bbd7294b94201a5d776307b3f0742847db1"
ebi-gxa
parents:
diff changeset
6 <requirements>
5
eca76dd511f4 "planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit bb88d0eb9c193518eb0d05321e3458a10212d3ab"
ebi-gxa
parents: 4
diff changeset
7 <requirement type="package" version="0.0.9">scpred-cli</requirement>
0
c54f0e1a3bd8 "planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 6ea13bbd7294b94201a5d776307b3f0742847db1"
ebi-gxa
parents:
diff changeset
8 <yield/>
c54f0e1a3bd8 "planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 6ea13bbd7294b94201a5d776307b3f0742847db1"
ebi-gxa
parents:
diff changeset
9 </requirements>
c54f0e1a3bd8 "planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 6ea13bbd7294b94201a5d776307b3f0742847db1"
ebi-gxa
parents:
diff changeset
10 </xml>
c54f0e1a3bd8 "planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 6ea13bbd7294b94201a5d776307b3f0742847db1"
ebi-gxa
parents:
diff changeset
11 <xml name="version">
c54f0e1a3bd8 "planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 6ea13bbd7294b94201a5d776307b3f0742847db1"
ebi-gxa
parents:
diff changeset
12 <version_command><![CDATA[
c54f0e1a3bd8 "planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 6ea13bbd7294b94201a5d776307b3f0742847db1"
ebi-gxa
parents:
diff changeset
13 echo $(R --version | grep version | grep -v GNU)", scpred version" $(R --vanilla --slave -e "library(scpred); cat(sessionInfo()\$otherPkgs\$scpred\$Version)" 2> /dev/null | grep -v -i "WARNING: ")
c54f0e1a3bd8 "planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 6ea13bbd7294b94201a5d776307b3f0742847db1"
ebi-gxa
parents:
diff changeset
14 ]]></version_command>
c54f0e1a3bd8 "planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 6ea13bbd7294b94201a5d776307b3f0742847db1"
ebi-gxa
parents:
diff changeset
15 </xml>
c54f0e1a3bd8 "planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 6ea13bbd7294b94201a5d776307b3f0742847db1"
ebi-gxa
parents:
diff changeset
16 <token name="@VERSION_HISTORY@"><![CDATA[
c54f0e1a3bd8 "planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 6ea13bbd7294b94201a5d776307b3f0742847db1"
ebi-gxa
parents:
diff changeset
17 **Version history**
5
eca76dd511f4 "planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit bb88d0eb9c193518eb0d05321e3458a10212d3ab"
ebi-gxa
parents: 4
diff changeset
18 1.0.1+galaxy0: Update output format from csv to tsv
0
c54f0e1a3bd8 "planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 6ea13bbd7294b94201a5d776307b3f0742847db1"
ebi-gxa
parents:
diff changeset
19 1.0.0+galaxy0: Initilal contribution. Andrey Solovyev, Expression Atlas team https://www.ebi.ac.uk/gxa/home at EMBL-EBI https://www.ebi.ac.uk/.
c54f0e1a3bd8 "planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 6ea13bbd7294b94201a5d776307b3f0742847db1"
ebi-gxa
parents:
diff changeset
20 ]]></token>
c54f0e1a3bd8 "planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 6ea13bbd7294b94201a5d776307b3f0742847db1"
ebi-gxa
parents:
diff changeset
21 <xml name="citations">
c54f0e1a3bd8 "planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 6ea13bbd7294b94201a5d776307b3f0742847db1"
ebi-gxa
parents:
diff changeset
22 <citations>
c54f0e1a3bd8 "planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 6ea13bbd7294b94201a5d776307b3f0742847db1"
ebi-gxa
parents:
diff changeset
23 <citation type="bibtex">
c54f0e1a3bd8 "planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 6ea13bbd7294b94201a5d776307b3f0742847db1"
ebi-gxa
parents:
diff changeset
24 @article{Alquicira-Hernandez2019,
c54f0e1a3bd8 "planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 6ea13bbd7294b94201a5d776307b3f0742847db1"
ebi-gxa
parents:
diff changeset
25 author = {Alquicira-Hernandez, Jose and Sathe, Anuja and Ji, Hanlee P and Nguyen, Quan and Powell, Joseph E},
c54f0e1a3bd8 "planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 6ea13bbd7294b94201a5d776307b3f0742847db1"
ebi-gxa
parents:
diff changeset
26 journal = {Genome Biology},
c54f0e1a3bd8 "planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 6ea13bbd7294b94201a5d776307b3f0742847db1"
ebi-gxa
parents:
diff changeset
27 title = {{scPred: accurate supervised method for cell-type classification from single-cell RNA-seq data}},
c54f0e1a3bd8 "planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 6ea13bbd7294b94201a5d776307b3f0742847db1"
ebi-gxa
parents:
diff changeset
28 url = {https://doi.org/10.1186/s13059-019-1862-5},
c54f0e1a3bd8 "planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 6ea13bbd7294b94201a5d776307b3f0742847db1"
ebi-gxa
parents:
diff changeset
29 year = {2019}
c54f0e1a3bd8 "planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 6ea13bbd7294b94201a5d776307b3f0742847db1"
ebi-gxa
parents:
diff changeset
30 }
c54f0e1a3bd8 "planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 6ea13bbd7294b94201a5d776307b3f0742847db1"
ebi-gxa
parents:
diff changeset
31 </citation>
c54f0e1a3bd8 "planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 6ea13bbd7294b94201a5d776307b3f0742847db1"
ebi-gxa
parents:
diff changeset
32 <citation type="bibtex">
c54f0e1a3bd8 "planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 6ea13bbd7294b94201a5d776307b3f0742847db1"
ebi-gxa
parents:
diff changeset
33 @misc{githubscpred-cli.git,
c54f0e1a3bd8 "planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 6ea13bbd7294b94201a5d776307b3f0742847db1"
ebi-gxa
parents:
diff changeset
34 author = {Andrey Solovyev, EBI Gene Expression Team},
c54f0e1a3bd8 "planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 6ea13bbd7294b94201a5d776307b3f0742847db1"
ebi-gxa
parents:
diff changeset
35 year = {2019},
c54f0e1a3bd8 "planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 6ea13bbd7294b94201a5d776307b3f0742847db1"
ebi-gxa
parents:
diff changeset
36 title = {scpred-cli: command line interface for ScPred tool},
c54f0e1a3bd8 "planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 6ea13bbd7294b94201a5d776307b3f0742847db1"
ebi-gxa
parents:
diff changeset
37 publisher = {GitHub},
c54f0e1a3bd8 "planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 6ea13bbd7294b94201a5d776307b3f0742847db1"
ebi-gxa
parents:
diff changeset
38 journal = {GitHub repository},
c54f0e1a3bd8 "planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 6ea13bbd7294b94201a5d776307b3f0742847db1"
ebi-gxa
parents:
diff changeset
39 url = {https://github.com/ebi-gene-expression-group/scpred-cli.git},
c54f0e1a3bd8 "planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 6ea13bbd7294b94201a5d776307b3f0742847db1"
ebi-gxa
parents:
diff changeset
40 }
c54f0e1a3bd8 "planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 6ea13bbd7294b94201a5d776307b3f0742847db1"
ebi-gxa
parents:
diff changeset
41 </citation>
1
f0862eb4f999 "planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 241c850301f8094f6aa0016e2335a8b550c29aed"
ebi-gxa
parents: 0
diff changeset
42 <citation type="doi">10.1101/2020.04.08.032698</citation>
0
c54f0e1a3bd8 "planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 6ea13bbd7294b94201a5d776307b3f0742847db1"
ebi-gxa
parents:
diff changeset
43 <yield />
c54f0e1a3bd8 "planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 6ea13bbd7294b94201a5d776307b3f0742847db1"
ebi-gxa
parents:
diff changeset
44 </citations>
c54f0e1a3bd8 "planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 6ea13bbd7294b94201a5d776307b3f0742847db1"
ebi-gxa
parents:
diff changeset
45 </xml>
c54f0e1a3bd8 "planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 6ea13bbd7294b94201a5d776307b3f0742847db1"
ebi-gxa
parents:
diff changeset
46 </macros>