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- 2 KB (320 words) - 20:59, 12 May 2017
- 10 KB (1,461 words) - 23:06, 27 February 2017
- ==OA form ontology/autocomplete dependencies and update scripts== ...ntology/Autocomplete'''||'''postres table'''||'''Source(s)'''||'''Updating scripts'''||'''Used in OA'''20 KB (3,050 words) - 21:01, 19 April 2017
- #REDIRECT [[OA forms, tables, scripts, etc]]44 bytes (6 words) - 22:29, 1 February 2013
- All scripts at: Run all scripts using 'sudo' in the above directory15 KB (2,321 words) - 17:36, 18 August 2017
- --All scripts are under: /home/acedb/ranjana/human_disease ...location has changed, need to alert JC to change the locations for OA and scripts (done, 08.08.2013):36 KB (4,595 words) - 18:10, 15 March 2023
- 539 bytes (84 words) - 19:05, 25 January 2013
- Currently, on mangolassi the ccc.cgi and other scripts and files are here: *scripts5 KB (817 words) - 15:11, 18 February 2014
- =List of scripts and forms to talk about= Associated scripts: script that checks PubMed daily for new papers4 KB (536 words) - 20:31, 25 April 2011
Page text matches
- ** WB pipeline/scripts to generate jbrowse intron tracks ***Scott to point out scripts for processing intron RNASeq data:1 KB (182 words) - 15:49, 4 August 2022
- =List of scripts and forms to talk about= Associated scripts: script that checks PubMed daily for new papers4 KB (536 words) - 20:31, 25 April 2011
- #[[Understand the pipeline by looking at all scripts and forms]]388 bytes (49 words) - 20:02, 15 April 2011
- =Parsing Scripts= *There are two scripts that we run for processing the abstracts:3 KB (532 words) - 13:33, 31 March 2022
- ...he command line using AcePerl. This allows you to write sophisticated Perl scripts to mine WormBase. For details, see the [http://stein.cshl.org/AcePerl/ AceP711 bytes (108 words) - 11:13, 5 January 2011
- ...GSA linking development site that will be used for developing and testing scripts without impacting the live linking pipelines already in place. ...rly will do manual linking of the abstracts in parallel with the automated scripts recording the time it takes to do the various; while doing this she will al2 KB (361 words) - 23:31, 11 January 2011
- ==Scripts on Mangolassi==525 bytes (60 words) - 15:34, 17 May 2016
- $ cd $HOME/mart-build/scripts/wormbase-mart $ cd $HOME/mart-build/scripts/wormbase-mart/wormmart_WS195_meta_tables2 KB (289 words) - 18:24, 17 August 2010
- ...and-line version of the validator, make this module available to your Perl scripts (add to @INC path by using PERL5LIB, installing globally, etc.) and use the ...lidator, make both GFF3::Validator and GFF3::Online available to your Perl scripts. Install the validate_gff3_online script into Apache's CGI script directory3 KB (422 words) - 23:12, 13 August 2010
- * scripts under development907 bytes (113 words) - 14:27, 19 February 2010
- #[[Paper Pipeline Scripts]]1 KB (130 words) - 21:21, 15 March 2021
- *Table maker vs Scripts? *Chris will work with Juancarlos to sort out OA dumping scripts for Gene_regulation and Interaction OAs4 KB (651 words) - 16:11, 2 May 2013
- ...ded directly by curator vs. what was populated automatically (e.g. mapping scripts) *We should archive all data-processing scripts in GitHub4 KB (695 words) - 15:26, 7 June 2012
- ==OA and scripts for disease data== [[OA and scripts for disease data]]5 KB (782 words) - 20:56, 8 January 2020
- * Ranjana brought up thet the Cele_ prefix was breaking few scripts here at Caltech. Those are NCBI locus tag prefixes, they are listed as othe929 bytes (147 words) - 19:14, 21 February 2013
- ...remap.tar.bz2 remap.tar.bz2] contains all of the data files as well as the scripts etc.1 KB (194 words) - 12:46, 29 June 2021
- All scripts at: Run all scripts using 'sudo' in the above directory15 KB (2,321 words) - 17:36, 18 August 2017
- Scripts must be named according to the function they carry out. ...suffix that denotes their type (BASH scripts: .sh, Perl scripts: .pl, Ruby scripts: .rb).6 KB (950 words) - 15:36, 19 June 2014
- **When new sources files are available, scripts will run to generate and populate the tables needed for the curation form.1 KB (201 words) - 20:17, 29 August 2013
- * Write scripts to automate data extraction for existing tracks.1 KB (158 words) - 13:51, 5 August 2014
- Command: <code>./website-intermine/scripts/dump_ace.sh /mnt/ephemeral0/acedb_dump_ws244</code> ./website-intermine/scripts/dump_ace.sh /mnt/ephemeral0/acedb_dump_ws2449 KB (947 words) - 18:27, 12 August 2014
- *[[OA forms, tables, scripts, etc]] * [[Linking_script_pipeline | Linking scripts]]3 KB (325 words) - 17:36, 25 April 2023
- - Discussion on scripts re: generation of config files.1 KB (191 words) - 16:32, 30 September 2009
- * New update scripts2 KB (216 words) - 16:54, 31 March 2010
- * Model changes -- will need update of the scripts.2 KB (231 words) - 16:52, 14 April 2010
- '''Scripts'''1 KB (199 words) - 19:08, 10 February 2014
- ** To handle dead genes, scripts at Caltech that recognize them; replace with new gene1 KB (201 words) - 19:18, 24 January 2013
- ...tegrating JBrowse build into main website build (currently are stand alone scripts)1 KB (176 words) - 20:42, 3 May 2016
- Currently, on mangolassi the ccc.cgi and other scripts and files are here: *scripts5 KB (817 words) - 15:11, 18 February 2014
- /home/arun/gsa/scripts/01sortedLexicon.pl.<br> This script also uses the PERL modules available at /home/arun/gsa/scripts/perlmodules/.14 KB (2,324 words) - 19:51, 9 January 2015
- it has been included automatically into our .ACE files by scripts. The * need to look at scripts and change to handle new namespace4 KB (599 words) - 00:25, 4 May 2012
- ...epository called "wormbase-architecture" feel free to add your own Ansible scripts to this project. By using Ansible we will be able to automate DevOps operat ...Datomic. The first iteration will be very similar to the current Perl CGI scripts being used in production by their curators.5 KB (842 words) - 19:41, 17 February 2016
- ...interaction data, developed per descriptions from the N-Browse team. These scripts are described later in the document. ...ibed below. For components that require compilation, note the simple shell scripts named “_build.sh” where commands for Wormbase servers are placed.7 KB (1,133 words) - 17:52, 16 August 2010
- ...s -- could be wrong, but I don't think any gin_ tables are used in dumping scripts since we store WBGene IDs. except maybe gin_dead if people want those suppr ='''Previous (pre-nameserver move) Scripts:'''=9 KB (1,464 words) - 14:10, 29 May 2015
- * Updated JQuery scripts1 KB (178 words) - 21:51, 8 December 2010
- === Scripts for community description form === * James wrote scripts that will need to inform community CGI6 KB (926 words) - 16:49, 3 December 2015
- Users wishing to automate data retrieval from WormBase should direct their scripts to the data mining server (mining.wormbase.org) instead of the primary Worm2 KB (301 words) - 02:21, 1 April 2012
- /etc/sysconfig/network-scripts/ifcfg-eth02 KB (282 words) - 23:34, 13 August 2010
- ...lk_load_gff.pl program comes with BioPerl. Look for it in the subdirectory scripts/Bio-DB-GFF. Once you've got the database loaded, you can write scripts to mine the data. For example, this script will find all named (3-letter) g11 KB (1,663 words) - 17:45, 16 August 2010
- Supplementary scripts:4 KB (506 words) - 20:45, 10 August 2010
- ...shl.org) has been set up and can be remotely accessed via command-line and scripts. It is easy to link to WormBase or extract information for data-mining purp3 KB (514 words) - 15:39, 24 September 2007
- ''Obsolete-> To check if the re-population scripts worked, check out the [http://tazendra.caltech.edu/~azurebrd/var/work/pheno ...need to be transferred to tazendra and renamed to be recognizable by those scripts. Transfer files to tazendra: scp all files to acedb@tazendra.caltech.edu:/h10 KB (1,644 words) - 18:48, 13 August 2020
- * Stats script for runtime of scripts, to compare between releases.2 KB (311 words) - 16:12, 19 August 2021
- **Will need to re-run scripts with new data **Scripts needed in this directory: parse_kevin_godata.pl and populate_gop_OA_pheno2g6 KB (1,087 words) - 19:52, 27 July 2015
- * Paul and Gary: porting, perl scripts for querying datomic2 KB (296 words) - 01:51, 5 September 2015
- *how much power do the scripts need? can check ...understand demand of the application; requirements; development vs running scripts, how often? Efficient use of machines. Have 2 computers, getting a third; f8 KB (1,282 words) - 17:08, 7 July 2011
- ...file maps PubMed identifiers to MOD paper IDs. A script will run with ccc scripts every time to generate this universal mapping file to use. *gpi files: /home/azurebrd/public_html/cgi-bin/forms/ccc/scripts11 KB (1,666 words) - 17:53, 19 June 2014
- !Use - Dumping scripts |yes? for MA's scripts??8 KB (1,375 words) - 05:12, 21 April 2020
- ...modules -- one per step -- that implement the step or make calls to helper scripts * helper scripts in Perl or shell that assist in implementation25 KB (3,632 words) - 03:11, 28 October 2013
- **generate conversion matrix of existing scripts into Catalyst3 KB (365 words) - 19:14, 10 August 2010
