Mercurial > repos > iuc > ncbi_eutils_esearch

comparison esearch.xml @ 1:30150bd36c9a draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ncbi_entrez_eutils commit a4b0969b33a68a0ea9ba12291f6694aec24f13ed
author iuc
date Tue, 30 Oct 2018 19:08:02 -0400
parents c8a84e910e6b
children c6096cd97120
comparison
equal deleted inserted replaced
0:c8a84e910e6b 1:30150bd36c9a
4 <macros> 4 <macros>
5 <import>macros.xml</import> 5 <import>macros.xml</import>
6 </macros> 6 </macros>
7 <expand macro="requirements"/> 7 <expand macro="requirements"/>
8 <version_command>python esearch.py --version</version_command> 8 <version_command>python esearch.py --version</version_command>
9 <command detect_errors="aggressive" interpreter="python"><![CDATA[esearch.py 9 <command detect_errors="aggressive" interpreter="python"><![CDATA[
10 esearch.py
10 $db_select 11 $db_select
11 "$term" 12 "$term"
12 13
13 #if $history_file and $history_file is not None: 14 #if $history_file and $history_file is not None:
14 --history_file $history_file 15 --history_file '$history_file'
15 #end if 16 #end if
16 17
17 #if $date.enabled: 18 #if $date.enabled == 'True'
18 --datetype $date.datetype 19 --datetype $date.datetype
19 20
20 #if $date.reldate and $date.reldate is not None: 21 #if $date.reldate and $date.reldate is not None:
21 --reldate $date.reldate 22 --reldate $date.reldate
22 #end if 23 #end if
23 24
24 #if $date.mindate and $date.mindate is not None: 25 #if $date.mindate and $date.mindate is not None:
25 --mindate $date.mindate 26 --mindate '$date.mindate'
26 #end if 27 #end if
27 28
28 #if $date.maxdate and $date.maxdate is not None: 29 #if $date.maxdate and $date.maxdate is not None:
29 --maxdate $date.maxdate 30 --maxdate '$date.maxdate'
30 #end if 31 #end if
31 #end if 32 #end if
32 33
33 #if $use_history: 34 #if $use_history:
34 --history_out $history 35 --history_out $history
36 37
37 @EMAIL_ARGUMENTS@ 38 @EMAIL_ARGUMENTS@
38 > $default]]></command> 39 > $default]]></command>
39 <inputs> 40 <inputs>
40 <expand macro="dbselect"/> 41 <expand macro="dbselect"/>
41 <param label="Search Term" name="term" type="text"> 42 <param name="term" type="text" label="Search term">
42 <sanitizer> 43 <sanitizer>
43 <valid> 44 <valid>
44 <add value="'"/> 45 <add value="'"/>
45 <add value="["/> 46 <add value="["/>
46 <add value="]"/> 47 <add value="]"/>
47 </valid> 48 </valid>
48 </sanitizer> 49 </sanitizer>
49 </param> 50 </param>
50 <param label="Filter existing history" name="history_file" type="data" format="json" optional="True"/> 51 <param name="history_file" type="data" format="json" optional="true" label="Filter existing history" />
51 <param checked="false" label="Store results to history server" name="use_history" type="boolean" truevalue="--use_history" falsevalue=""/> 52 <param name="use_history" type="boolean" truevalue="--use_history" falsevalue="" checked="false" label="Store results to history server" />
52 <conditional name="date"> 53 <conditional name="date">
53 <param label="Filter By Date" type="boolean" truevalue="True" falsevalue="False" checked="false" name="enabled"/> 54 <param name="enabled" type="select" label="Filter by date">
55 <option value="False">No</option>
56 <option value="True">Yes</option>
57 </param>
54 <when value="True"> 58 <when value="True">
55 <param label="Date type" name="datetype" type="select"> 59 <param label="Date type" name="datetype" type="select">
56 <option value="PDAT">Publish Date</option> 60 <option value="PDAT">Publish date</option>
57 <option value="EDAT">Entrez Date</option> 61 <option value="EDAT">Entrez date</option>
58 <option value="MDAT">Modification Date</option> 62 <option value="MDAT">Modification date</option>
59 </param> 63 </param>
60 <param label="In past N days" name="reldate" type="integer" min="1" optional="True"/> 64 <param name="reldate" type="integer" min="1" optional="true" label="In past N days" />
61 <param label="Minimum date" help="YYYY, YYYY/MM, or YYYY/MM/DD" name="mindate" type="text"/> 65 <param name="mindate" type="text" label="Minimum date" help="YYYY, YYYY/MM or YYYY/MM/DD" />
62 <param label="maximum date" help="YYYY, YYYY/MM, or YYYY/MM/DD" name="maxdate" type="text"/> 66 <param name="maxdate" type="text" label="Maximum date" help="YYYY, YYYY/MM or YYYY/MM/DD" />
63 </when> 67 </when>
64 <when value="False"/> 68 <when value="False"/>
65 </conditional> 69 </conditional>
66 </inputs> 70 </inputs>
67 <outputs> 71 <outputs>
68 <data format="json" name="default" label="ESearch Results for $term"> 72 <data name="default" format="json" label="ESearch results for $term">
69 <change_format> 73 <change_format>
70 <when input="use_history" value="" format="xml"/> 74 <when input="use_history" value="" format="xml"/>
71 </change_format> 75 </change_format>
72 </data> 76 </data>
73 <expand macro="history_out"> 77 <expand macro="history_out">