Mercurial > repos > iuc > ncbi_eutils_efetch
comparison README.md @ 0:1b4ac594d02a draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ncbi_entrez_eutils commit 780c9984a9c44d046aadf1e316a668d1e53aa1f0
| author | iuc |
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| date | Sat, 31 Oct 2015 12:44:54 -0400 |
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| 1 # Galaxy NCBI Entrez Tools | |
| 2 | |
| 3 This repo requires a readme as administrators should very aware of some | |
| 4 restrictions NCBI places on the use of the Entrez service. | |
| 5 | |
| 6 NCBI requests that you please limit large jobs to either weekends or between | |
| 7 9:00 PM and 5:00 AM Eastern time during weekdays. This is not a request that | |
| 8 the Galaxy tool can easily service, so we've included it in the disclaimer on | |
| 9 every tool quite prominently. | |
| 10 | |
| 11 Failure to comply with NCBI's policies may result in an block until you/the | |
| 12 user contacts NCBI and registers the tool ID and their email. | |
| 13 | |
| 14 Note that these are *IP* level blocks so the Galaxy tools uses a concatenation | |
| 15 of the administrator's emails, and the user email, in hopes that NCBI will | |
| 16 contact all relevant parties should their system be abused. | |
| 17 | |
| 18 Additionally, since these are IP level blocks, the Galaxy tool author (@erasche) recommends | |
| 19 using the following `jobs_conf.xml` snippet in order to place a system-wide | |
| 20 restriction of 1 concurrent Entrez job amongst all users. | |
| 21 | |
| 22 ```xml | |
| 23 <destination id="entrez" runner="local"> | |
| 24 </destination> | |
| 25 <limit type="concurrent_jobs" id="entrez">1</limit> | |
| 26 <tools> | |
| 27 <tool id="ncbi.eutils.efetch" destination="entrez" /> | |
| 28 <tool id="ncbi.eutils.esearch" destination="entrez" /> | |
| 29 <tool id="ncbi.eutils.epost" destination="entrez" /> | |
| 30 <tool id="ncbi.eutils.elink" destination="entrez" /> | |
| 31 <tool id="ncbi.eutils.einfo" destination="entrez" /> | |
| 32 <tool id="ncbi.eutils.esummary" destination="entrez" /> | |
| 33 </tools> | |
| 34 ``` |