Mercurial > repos > iuc > ncbi_entrez_direct_esearch

comparison macros.xml @ 0:b6ffd64c448e draft

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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ncbi_entrez_direct commit 8f96f378620bb663dcce2845ecb14355413f7afa"
author iuc
date Tue, 22 Mar 2022 22:30:57 +0000
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children 1033d15d827f
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-1:000000000000 0:b6ffd64c448e
1 <macros>
2 <token name="@TOOL_VERSION@">13.3</token>
3 <xml name="requirements">
4 <requirements>
5 <requirement type="package" version="@TOOL_VERSION@">entrez-direct</requirement>
6 </requirements>
7 </xml>
8 <token name="@ECONTACT@"><![CDATA[
9 #set $__contact_email__ = ';'.join( str( $__admin_users__ ).split( ',' ) )
10 #if str( $__user_email__ ):
11 #set $__contact_email__ = $__contact_email__ + ";" + str( $__user_email__ )
12 #end if
13 econtact -email "${ __contact_email__ }" -tool "galaxy_ncbi_entrez_direct" > /dev/null ;
14 ]]>
15 </token>
16 <token name="@DISCLAIMER@"><![CDATA[
17 Usage Guidelines and Requirements
18 =================================
19
20 Frequency, Timing, and Registration of E-utility URL Requests
21 -------------------------------------------------------------
22
23 In order not to overload the E-utility servers, NCBI recommends that users
24 limit large jobs to either weekends or between 9:00 PM and 5:00 AM Eastern time
25 during weekdays. Failure to comply with this policy may result in an IP address
26 being blocked from accessing NCBI.
27
28 Minimizing the Number of Requests
29 ---------------------------------
30
31 If a task requires searching for and/or downloading a large number of
32 records, it is much more efficient to use the Entrez History to upload
33 and/or retrieve these records in batches rather than using separate
34 requests for each record. Please refer to Application 3 in Chapter 3
35 for an example. Many thousands of IDs can be uploaded using a single
36 EPost request, and several hundred records can be downloaded using one
37 EFetch request.
38
39
40 Disclaimer and Copyright Issues
41 -------------------------------
42
43 In accordance with requirements of NCBI's E-Utilities, we must provide
44 the following disclaimer:
45
46 Please note that abstracts in PubMed may incorporate material that may
47 be protected by U.S. and foreign copyright laws. All persons
48 reproducing, redistributing, or making commercial use of this
49 information are expected to adhere to the terms and conditions asserted
50 by the copyright holder. Transmission or reproduction of protected
51 items beyond that allowed by fair use (PDF) as defined in the copyright
52 laws requires the written permission of the copyright owners. NLM
53 provides no legal advice concerning distribution of copyrighted
54 materials. Please consult your legal counsel. If you wish to do a large
55 data mining project on PubMed data, you can enter into a licensing
56 agreement and lease the data for free from NLM. For more information on
57
58 The `full disclaimer <https://www.ncbi.nlm.nih.gov/home/about/policies/>`__ is available on
59 their website
60
61 Liability
62 ~~~~~~~~~
63
64 For documents and software available from this server, the
65 U.S. Government does not warrant or assume any legal liability or
66 responsibility for the accuracy, completeness, or usefulness of any
67 information, apparatus, product, or process disclosed.
68
69 Endorsement
70 ~~~~~~~~~~~
71
72 NCBI does not endorse or recommend any commercial
73 products, processes, or services. The views and opinions of authors
74 expressed on NCBI's Web sites do not necessarily state or reflect those
75 of the U.S. Government, and they may not be used for advertising or
76 product endorsement purposes.
77
78 External Links
79 ~~~~~~~~~~~~~~
80
81 Some NCBI Web pages may provide links to other Internet
82 sites for the convenience of users. NCBI is not responsible for the
83 availability or content of these external sites, nor does NCBI endorse,
84 warrant, or guarantee the products, services, or information described
85 or offered at these other Internet sites. Users cannot assume that the
86 external sites will abide by the same Privacy Policy to which NCBI
87 adheres. It is the responsibility of the user to examine the copyright
88 and licensing restrictions of linked pages and to secure all necessary
89 permissions.
90 ]]></token>
91 <xml name="citations">
92 <citations>
93 <citation type="bibtex">@Book{ncbiEDirect,
94 author = {Jonathan Kans},
95 title = {Entrez Direct: E-utilities on the UNIX Command Line},
96 year = {2013},
97 publisher = {National Center for Biotechnology Information, Bethesda, Maryland},
98 note = {http://www.ncbi.nlm.nih.gov/books/NBK179288/}
99 }</citation>
100 </citations>
101 </xml>
102 </macros>