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Commit ef8210d3 authored by tpylak's avatar tpylak
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LMS-1336 sql to create screening metadata 

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screening/source/sql/postgresql/001/data.sql 0 → 100644
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-- TODO: this sql should be converted to a generic sql without refering to technical ids.
-- Now the ids should be updated if some new records will be added in the generic data.
--
-- PostgreSQL database dump
--
SET statement_timeout = 0;
SET client_encoding = 'UTF8';
SET standard_conforming_strings = off;
SET check_function_bodies = false;
SET client_min_messages = warning;
SET escape_string_warning = off;
SET search_path = public, pg_catalog;
--
-- Data for Name: controlled_vocabularies; Type: TABLE DATA; Schema: public; Owner: -
--
COPY controlled_vocabularies (id, code, description, registration_timestamp, pers_id_registerer, is_managed_internally, is_internal_namespace, dbin_id, modification_timestamp, is_chosen_from_list, source_uri) FROM stdin;
2 PLATE_GEOMETRY The geometry or dimensions of a plate 2008-06-17 16:38:30.723292+02 1 t t 1 2009-11-27 16:02:26.451046+01 t \N
3 MICROSCOPE Microscope used in an experiment. 2009-11-29 23:55:18.978884+01 1 f f 1 2009-12-17 01:50:54.68+01 t \N
\.
--
-- Data for Name: controlled_vocabulary_terms; Type: TABLE DATA; Schema: public; Owner: -
--
COPY controlled_vocabulary_terms (id, code, registration_timestamp, covo_id, pers_id_registerer, label, description, ordinal) FROM stdin;
3 384_WELLS_16X24 2008-06-17 16:38:30.723292+02 1 1 384 Wells, 16x24 \N 1
4 96_WELLS_8X12 2008-06-17 16:38:31.101031+02 1 1 96 Wells, 8x12 \N 2
5 1536_WELLS_32X48 2008-06-17 16:38:31.101031+02 1 1 1536 Wells, 32x48 \N 3
6 BD_PATHWAY_855 2009-11-29 23:55:18.978884+01 3 1 \N \N 1
7 MD_IMAGEXPRESS_MICROLIVE 2009-11-29 23:55:18.978884+01 3 1 \N \N 2
8 MD_IMAGEXPRESS_MICRO_2 2009-11-29 23:55:18.978884+01 3 1 \N \N 3
\.
--
-- Data for Name: data_set_types; Type: TABLE DATA; Schema: public; Owner: -
--
COPY data_set_types (id, code, description, dbin_id, modification_timestamp) FROM stdin;
3 HCS_IMAGE_ANALYSIS_DATA Data derived from analysis of HCS images 1 2009-11-27 16:02:26.451046+01
2 HCS_IMAGE HCS raw images acquired by microscopes 1 2009-11-27 16:02:26.451046+01
4 HCS_ANALYSIS_PER_GENE Image analysis data aggregated per gene. 1 2009-12-16 16:59:50.743029+01
\.
--
-- Data for Name: material_types; Type: TABLE DATA; Schema: public; Owner: -
--
COPY material_types (id, code, description, dbin_id, modification_timestamp) FROM stdin;
1 VIRUS Virus 1 2009-11-27 16:02:26.451046+01
2 CELL_LINE Cell Line or Cell Culture. The growing of cells under controlled conditions. 1 2009-11-27 16:02:26.451046+01
3 GENE Gene 1 2009-11-27 16:02:26.451046+01
4 OLIGO Oligo nucleotide 1 2009-11-27 16:02:26.451046+01
5 CONTROL Control of a control layout 1 2009-11-27 16:02:26.451046+01
6 BACTERIUM Bacterium 1 2009-11-27 16:02:26.451046+01
7 COMPOUND Compound 1 2009-11-27 16:02:26.451046+01
\.
--
-- Data for Name: property_types; Type: TABLE DATA; Schema: public; Owner: -
--
COPY property_types (id, code, description, label, daty_id, registration_timestamp, pers_id_registerer, covo_id, is_managed_internally, is_internal_namespace, dbin_id, maty_prop_id) FROM stdin;
3 NUCLEOTIDE_SEQUENCE A sequence of nucleotides Nucleotide Sequence 1 2008-02-28 13:03:03.358532+01 1 \N f f 1 \N
4 REFSEQ NCBI Reference Sequence code, applicable to sequences of type: DNA, RNA, protein RefSeq 1 2008-02-28 13:03:03.358532+01 1 \N f f 1 \N
13 MICROSCOPE Microscope 7 2009-11-29 23:57:05.85618+01 1 3 f f 1 \N
7 INHIBITOR_OF Inhibitor Of Inhibitor Of 8 2009-11-27 16:02:45.060699+01 1 \N f f 1 3
11 OLIGO Oligo Oligo 8 2009-11-29 23:56:19.39967+01 1 \N f f 1 4
12 CONTROL Control Control 8 2009-11-29 23:56:37.355313+01 1 \N f f 1 5
6 PLATE_GEOMETRY Plate Geometry Plate Geometry 7 2008-06-17 16:38:30.723292+02 1 1 t t 1 \N
15 NUMBER_OF_CHANNEL Channels 3 2009-12-17 10:56:17.239319+01 1 \N f f 1 \N
\.
--
-- Data for Name: data_set_type_property_types; Type: TABLE DATA; Schema: public; Owner: -
--
COPY data_set_type_property_types (id, dsty_id, prty_id, is_mandatory, is_managed_internally, pers_id_registerer, registration_timestamp, section, ordinal) FROM stdin;
\.
--
-- Data for Name: experiment_types; Type: TABLE DATA; Schema: public; Owner: -
--
COPY experiment_types (id, code, description, dbin_id, modification_timestamp) FROM stdin;
2 COMPOUND_HCS Compound High Content Screening 1 2009-11-27 16:02:26.451046+01
1 SIRNA_HCS Small Interfering RNA High Content Screening 1 2009-11-27 16:02:26.451046+01
\.
--
-- Data for Name: experiment_type_property_types; Type: TABLE DATA; Schema: public; Owner: -
--
COPY experiment_type_property_types (id, exty_id, prty_id, is_mandatory, is_managed_internally, pers_id_registerer, registration_timestamp, section, ordinal) FROM stdin;
1 1 1 t t 1 2008-06-17 16:38:49.023295+02 \N 1
2 2 1 t t 1 2008-06-17 16:38:49.301922+02 \N 1
5 1 13 f f 1 2009-12-17 10:54:01.261178+01 \N 2
\.
--
-- Data for Name: file_format_types; Type: TABLE DATA; Schema: public; Owner: -
--
COPY file_format_types (id, code, description, dbin_id) FROM stdin;
7 PNG \N 1
8 CSV files with values separated by comma or semicolon 1
\.
--
-- Data for Name: filters; Type: TABLE DATA; Schema: public; Owner: -
--
COPY filters (id, dbin_id, name, description, registration_timestamp, pers_id_registerer, modification_timestamp, expression, is_public, grid_id) FROM stdin;
9 1 Infection index \N 2009-12-16 21:19:19.012657+01 1 2009-12-16 22:41:56.863+01 float(row.col('colIndex_5')) > float(${threshold}) t data-set-reporting-gridplate-image-analysis-merger
8 1 Total number of cells \N 2009-12-16 21:18:05.161964+01 1 2009-12-16 22:42:31.707+01 int(row.col('colIndex_3')) > int(${threshold}) t data-set-reporting-gridplate-image-analysis-merger
7 1 Number of infected cells \N 2009-12-16 21:17:40.765083+01 1 2009-12-16 22:42:46.052+01 int(row.col('colIndex_4')) > int(${threshold}) t data-set-reporting-gridplate-image-analysis-merger
\.
--
-- Data for Name: material_type_property_types; Type: TABLE DATA; Schema: public; Owner: -
--
COPY material_type_property_types (id, maty_id, prty_id, is_mandatory, registration_timestamp, pers_id_registerer, is_managed_internally, section, ordinal) FROM stdin;
10 4 7 t 2009-11-27 16:02:45.060699+01 1 f \N 4
9 5 1 f 2008-02-28 13:03:03.358532+01 1 f \N 1
8 4 1 f 2008-02-28 13:03:03.358532+01 1 f \N 3
6 4 3 t 2008-02-28 13:03:03.358532+01 1 f \N 1
5 3 1 f 2008-02-28 13:03:03.358532+01 1 f \N 2
3 7 1 t 2008-02-28 13:03:03.358532+01 1 f \N 1
2 6 1 t 2008-02-28 13:03:03.358532+01 1 f \N 1
1 1 1 t 2008-02-28 13:03:03.358532+01 1 f \N 1
\.
--
-- Data for Name: sample_types; Type: TABLE DATA; Schema: public; Owner: -
--
COPY sample_types (id, code, description, dbin_id, is_listable, generated_from_depth, part_of_depth, modification_timestamp, is_auto_generated_code, generated_code_prefix) FROM stdin;
7 OLIGO_WELL \N 1 f 0 1 2009-11-27 19:42:03.483115+01 f O
8 CONTROL_WELL \N 1 f 0 1 2009-11-27 19:42:25.791288+01 f C
3 PLATE Cell Plate 1 t 2 0 2009-11-27 16:02:26.451046+01 f S
\.
--
-- Data for Name: sample_type_property_types; Type: TABLE DATA; Schema: public; Owner: -
--
COPY sample_type_property_types (id, saty_id, prty_id, is_mandatory, is_managed_internally, pers_id_registerer, registration_timestamp, is_displayed, section, ordinal) FROM stdin;
8 7 11 f f 1 2009-11-29 23:57:38.268212+01 t \N 1
9 8 12 f f 1 2009-11-29 23:57:49.098187+01 t \N 1
10 3 6 f f 1 2009-11-30 01:28:20.972263+01 t \N 1
\.
select setval('controlled_vocabulary_id_seq', 100);
select setval('cvte_id_seq', 100);
select setval('property_type_id_seq', 100);
select setval('file_format_type_id_seq', 100);
select setval('filter_id_seq', 100);
select setval('experiment_type_id_seq', 100);
select setval('sample_type_id_seq', 100);
select setval('data_set_type_id_seq', 100);
select setval('material_type_id_seq', 100);
select setval('etpt_id_seq', 100);
select setval('stpt_id_seq', 100);
select setval('mtpt_id_seq', 100);
--
-- PostgreSQL database dump complete
--
screening/source/sql/postgresql/001/upload-screening-metadata.sh 0 → 100755
+ 2
− 0
View file @ ef8210d3
DB=$1
psql -U postgres -d openbis_$DB -f data.sql
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