icsearch/dbsf_ssaha2.inc File Reference

Go to the source code of this file.

Functions
	dbsf_ssaha2_menu ()
	dbsf_add_software_ssaha2 ()
	dbsf_software_ssaha2_core_settings_form ($form_state)
	dbsf_software_ssaha2_core_settings_form_validate ($form, &$form_state)
	dbsf_software_ssaha2_core_settings_form_submit ($form, &$form_state)
	dbsf_admin_ssaha2_page ($software= 'ssaha2')
	dbsf_check_ssaha2 ($software)
	dbsf_ssaha2_page ()
	dbsf_ssaha2_form ($form_state)
	dbsf_ssaha2_form_validate ($form, &$form_state)
	dbsf_ssaha2_form_submit ($form, &$form_state)
	dbsf_ssaha2_result_page ($submission_uid=NULL)

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Detailed Description

Universal Search Server Module plugin A Drupal module to implement SSAHA2 usage via the Universal Search Server Developed by Alexie Papanicolaou. Licensed under GPLv3 University of Exeter. Licensed under GPLv3

See also:

http://insectacentral.org/

This module was built using SSAHA2 v2.4.1

SSAHA2 is a package combining SSAHA with cross_match developed by Phil Green at the University of Washington. Reference: Ning Z, Cox AJ, Mullikin JC. SSAHA: a fast search method for large DNAdatabases. Genome Res. 2001 Oct;11(10):1725-9.

Definition in file dbsf_ssaha2.inc.

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Function Documentation

dbsf_add_software_ssaha2

(

)

Definition at line 74 of file dbsf_ssaha2.inc.

References dbsf_add_software_option(), icbasic_get_add_cv_withnames(), icbasic_get_add_dbxref_withnames(), icbasic_populate_cvterms(), and icbasic_populate_prop().

Referenced by dbsf_install().

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dbsf_admin_ssaha2_page

(

$

software = 'ssaha2'

)

Definition at line 254 of file dbsf_ssaha2.inc.

References dbsf_admin_database_table(), and dbsf_check_software_active().

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dbsf_check_ssaha2

(

$

software

)

Definition at line 284 of file dbsf_ssaha2.inc.

References dbsf_check_software_active(), and dbsf_get_softwareprop().

Referenced by dbsf_ssaha2_page().

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dbsf_software_ssaha2_core_settings_form

(

$

form_state

)

Definition at line 171 of file dbsf_ssaha2.inc.

dbsf_software_ssaha2_core_settings_form_submit	(	$	form,
		&$	form_state
	)

Definition at line 230 of file dbsf_ssaha2.inc.

dbsf_software_ssaha2_core_settings_form_validate	(	$	form,
		&$	form_state
	)

Definition at line 210 of file dbsf_ssaha2.inc.

dbsf_ssaha2_form

(

$

form_state

)

Definition at line 338 of file dbsf_ssaha2.inc.

References $user, _dbsf_generate_options(), and dbsf_get_user_datasets().

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dbsf_ssaha2_form_submit	(	$	form,
		&$	form_state
	)

Definition at line 466 of file dbsf_ssaha2.inc.

References dbsf_get_dataset_path(), and icbasic_create_uid().

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dbsf_ssaha2_form_validate	(	$	form,
		&$	form_state
	)

Definition at line 421 of file dbsf_ssaha2.inc.

References icbasic_validate_seq_dna().

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dbsf_ssaha2_menu

(

)

Definition at line 47 of file dbsf_ssaha2.inc.

Referenced by dbsf_menu().

dbsf_ssaha2_page

(

)

Definition at line 313 of file dbsf_ssaha2.inc.

References dbsf_check_ssaha2().

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dbsf_ssaha2_result_page

(

$

submission_uid = NULL

)

Definition at line 563 of file dbsf_ssaha2.inc.