Mercurial > repos > iuc > ncbi_entrez_direct_efetch
diff macros.xml @ 0:91efba463050 draft
"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 22:30:08 +0000 |
parents | |
children | 4d0b8d9aee09 |
line wrap: on
line diff
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/macros.xml Tue Mar 22 22:30:08 2022 +0000 @@ -0,0 +1,102 @@ +<macros> + <token name="@TOOL_VERSION@">13.3</token> + <xml name="requirements"> + <requirements> + <requirement type="package" version="@TOOL_VERSION@">entrez-direct</requirement> + </requirements> + </xml> + <token name="@ECONTACT@"><![CDATA[ + #set $__contact_email__ = ';'.join( str( $__admin_users__ ).split( ',' ) ) + #if str( $__user_email__ ): + #set $__contact_email__ = $__contact_email__ + ";" + str( $__user_email__ ) + #end if + econtact -email "${ __contact_email__ }" -tool "galaxy_ncbi_entrez_direct" > /dev/null ; + ]]> + </token> + <token name="@DISCLAIMER@"><![CDATA[ +Usage Guidelines and Requirements +================================= + +Frequency, Timing, and Registration of E-utility URL Requests +------------------------------------------------------------- + +In order not to overload the E-utility servers, NCBI recommends that users +limit large jobs to either weekends or between 9:00 PM and 5:00 AM Eastern time +during weekdays. Failure to comply with this policy may result in an IP address +being blocked from accessing NCBI. + +Minimizing the Number of Requests +--------------------------------- + +If a task requires searching for and/or downloading a large number of +records, it is much more efficient to use the Entrez History to upload +and/or retrieve these records in batches rather than using separate +requests for each record. Please refer to Application 3 in Chapter 3 +for an example. Many thousands of IDs can be uploaded using a single +EPost request, and several hundred records can be downloaded using one +EFetch request. + + +Disclaimer and Copyright Issues +------------------------------- + +In accordance with requirements of NCBI's E-Utilities, we must provide +the following disclaimer: + +Please note that abstracts in PubMed may incorporate material that may +be protected by U.S. and foreign copyright laws. All persons +reproducing, redistributing, or making commercial use of this +information are expected to adhere to the terms and conditions asserted +by the copyright holder. Transmission or reproduction of protected +items beyond that allowed by fair use (PDF) as defined in the copyright +laws requires the written permission of the copyright owners. NLM +provides no legal advice concerning distribution of copyrighted +materials. Please consult your legal counsel. If you wish to do a large +data mining project on PubMed data, you can enter into a licensing +agreement and lease the data for free from NLM. For more information on + +The `full disclaimer <https://www.ncbi.nlm.nih.gov/home/about/policies/>`__ is available on +their website + +Liability +~~~~~~~~~ + +For documents and software available from this server, the +U.S. Government does not warrant or assume any legal liability or +responsibility for the accuracy, completeness, or usefulness of any +information, apparatus, product, or process disclosed. + +Endorsement +~~~~~~~~~~~ + +NCBI does not endorse or recommend any commercial +products, processes, or services. The views and opinions of authors +expressed on NCBI's Web sites do not necessarily state or reflect those +of the U.S. Government, and they may not be used for advertising or +product endorsement purposes. + +External Links +~~~~~~~~~~~~~~ + +Some NCBI Web pages may provide links to other Internet +sites for the convenience of users. NCBI is not responsible for the +availability or content of these external sites, nor does NCBI endorse, +warrant, or guarantee the products, services, or information described +or offered at these other Internet sites. Users cannot assume that the +external sites will abide by the same Privacy Policy to which NCBI +adheres. It is the responsibility of the user to examine the copyright +and licensing restrictions of linked pages and to secure all necessary +permissions. + ]]></token> + <xml name="citations"> + <citations> + <citation type="bibtex">@Book{ncbiEDirect, + author = {Jonathan Kans}, + title = {Entrez Direct: E-utilities on the UNIX Command Line}, + year = {2013}, + publisher = {National Center for Biotechnology Information, Bethesda, Maryland}, + note = {http://www.ncbi.nlm.nih.gov/books/NBK179288/} + }</citation> + </citations> + </xml> +</macros>