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test single enum for targets
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@ccaio
ccaio committed Aug 21, 2023
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11 changes: 11 additions & 0 deletions sources/test_taxondir/ATTR_target_contibuting_lists.types.yaml
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attributes:
contributing_project_lab:
status: temporary
description: Detailed information of responsible for species genome sequencing
display_name: Contributing project-lab
display_group: target_lists
display_level: 2
summary: list
traverse: list
traverse_direction: up
type: keyword
123 changes: 6 additions & 117 deletions sources/test_taxondir/ATTR_target_lists.types.yaml
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attributes:
long_list:
description: Full species wishlist of a project
display_name: Long list
display_group: target_lists
display_level: 2
default:
constraint:
enum:
- africabp
Expand Down Expand Up @@ -49,125 +45,18 @@ attributes:
- vgp
- ygg
- zoonomia
display_group: target_lists
display_level: 2
summary: list
traverse: list
traverse_direction: up
type: keyword
long_list:
description: Full species wishlist of a project
display_name: Long list
other_priority:
description: Species prioritised for sequencing
display_name: Other priority
display_group: target_lists
display_level: 2
constraint:
enum:
- africabp
- ag100pest
- agi
- arg
- asg
- b10k
- bat1k
- bioplatforms_australia
- canbp
- cbp
- ccgp
- cfgp
- dtol
- ebpn
- ein
- endemixit
- erga
- erga-bge
- erga-ch
- erga-pil
- eurofish
- gaga
- gap
- gbr
- giga
- i5k
- ilebp
- 1kfg
- lmgp
- loewe-tbg
- metainvert
- ogg
- omg
- other
- pgp
- phyloalps
- prgp
- psyche
- squalomix
- tsi
- vgp
- ygg
- zoonomia
summary: list
traverse: list
traverse_direction: up
type: keyword
family_representative:
description: Species prioritised for sequencing as family representatives
display_name: Family representative
display_group: target_lists
display_level: 2
constraint:
enum:
- africabp
- ag100pest
- agi
- arg
- asg
- b10k
- bat1k
- bioplatforms_australia
- canbp
- cbp
- ccgp
- cfgp
- dtol
- ebpn
- ein
- endemixit
- erga
- erga-bge
- erga-ch
- erga-pil
- eurofish
- gaga
- gap
- gbr
- giga
- i5k
- ilebp
- 1kfg
- lmgp
- loewe-tbg
- metainvert
- ogg
- omg
- other
- pgp
- phyloalps
- prgp
- psyche
- squalomix
- tsi
- vgp
- ygg
- zoonomia
summary: list
traverse: list
traverse_direction: up
type: keyword
contributing_project_lab:
status: temporary
description: Detailed information of responsible for species genome sequencing
display_name: Contributing project-lab
display_group: target_lists
display_level: 2
summary: list
traverse: list
traverse_direction: up
type: keyword
38 changes: 38 additions & 0 deletions sources/test_taxondir/ERGA-CH_expanded.tsv
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ncbi_taxon_id species subspecies family target_list_status sequencing_status synonym unnamed:_8 project long_list family_representative other_priority sample_collected sample_acquired in_progress data_generation in_assembly insdc_submitted open insdc_open published
647170 Palaemon varians Palaemonidae other_priority data_generation Palaemonetes varians Moulting ERGA-CH ERGA-CH ERGA-CH ERGA-CH ERGA-CH ERGA-CH ERGA-CH
41365 Scolopendra cingulata Scolopendridae other_priority data_generation Moulting ERGA-CH ERGA-CH ERGA-CH ERGA-CH ERGA-CH ERGA-CH ERGA-CH
29022 Scutigera coleoptrata Scutigeridae other_priority data_generation Moulting ERGA-CH ERGA-CH ERGA-CH ERGA-CH ERGA-CH ERGA-CH ERGA-CH
2973175 Archispirostreptus syriacus Spirostreptidae other_priority data_generation Moulting ERGA-CH ERGA-CH ERGA-CH ERGA-CH ERGA-CH ERGA-CH ERGA-CH
241674 Bothriogaster signata Himantariidae other_priority sample_acquired Moulting ERGA-CH ERGA-CH ERGA-CH ERGA-CH ERGA-CH
2994054 Hogna graeca Lycosidae other_priority sample_acquired Moulting ERGA-CH ERGA-CH ERGA-CH ERGA-CH ERGA-CH
280394 Holocnemus pluchei Pholcidae other_priority sample_acquired Aranea pluchii Moulting ERGA-CH ERGA-CH ERGA-CH ERGA-CH ERGA-CH
6863 Hottentotta judaicus Buthidae other_priority sample_acquired Hottentotta judaica Moulting ERGA-CH ERGA-CH ERGA-CH ERGA-CH ERGA-CH
1662104 Scorpio fuscus Scorpionidae other_priority sample_acquired Scorpio maurus fuscus Moulting ERGA-CH ERGA-CH ERGA-CH ERGA-CH ERGA-CH
986714 Armadillidium maculatum Armadillidiidae other_priority sample_acquired Moulting ERGA-CH ERGA-CH ERGA-CH ERGA-CH ERGA-CH
96821 Armadillo officinalis Armadillidae other_priority sample_collected Moulting ERGA-CH ERGA-CH ERGA-CH ERGA-CH
262335 Porcellio laevis Porcellionidae other_priority sample_collected Moulting ERGA-CH ERGA-CH ERGA-CH ERGA-CH
348718 Lopinga achine Nymphalidae other_priority sample_collected Pararge achine Trient ERGA-CH ERGA-CH ERGA-CH ERGA-CH
1400418 Rosalia alpina Cerambycidae other_priority sample_collected Trient ERGA-CH ERGA-CH ERGA-CH ERGA-CH
111411 Oreina speciosa Chrysomelidae other_priority Trient ERGA-CH ERGA-CH ERGA-CH
143294 Anodonta anatina Unionidae other_priority data_generation Mytilus anatinus Alex ERGA-CH ERGA-CH ERGA-CH ERGA-CH ERGA-CH ERGA-CH ERGA-CH
1660632 Erebia pluto Nymphalidae other_priority in_assembly Kay ERGA-CH ERGA-CH ERGA-CH ERGA-CH ERGA-CH ERGA-CH ERGA-CH
111902 Erebia euryale adyte Nymphalidae other_priority data_generation Kay ERGA-CH ERGA-CH ERGA-CH ERGA-CH ERGA-CH ERGA-CH ERGA-CH
111902 Erebia euryale isarica Nymphalidae other_priority in_assembly Kay ERGA-CH ERGA-CH ERGA-CH ERGA-CH ERGA-CH ERGA-CH ERGA-CH
242258 Erebia pandrose Nymphalidae other_priority in_assembly Kay ERGA-CH ERGA-CH ERGA-CH ERGA-CH ERGA-CH ERGA-CH ERGA-CH
468187 Erebia nivalis Nymphalidae other_priority in_assembly Kay ERGA-CH ERGA-CH ERGA-CH ERGA-CH ERGA-CH ERGA-CH ERGA-CH
242259 Erebia oeme Nymphalidae other_priority in_assembly Kay ERGA-CH ERGA-CH ERGA-CH ERGA-CH ERGA-CH ERGA-CH ERGA-CH
1664837 Erebia styx Nymphalidae other_priority data_generation Kay ERGA-CH ERGA-CH ERGA-CH ERGA-CH ERGA-CH ERGA-CH ERGA-CH
111900 Erebia cassioides Nymphalidae other_priority data_generation Kay ERGA-CH ERGA-CH ERGA-CH ERGA-CH ERGA-CH ERGA-CH ERGA-CH
468193 Erebia tyndarus Nymphalidae other_priority in_assembly Kay ERGA-CH ERGA-CH ERGA-CH ERGA-CH ERGA-CH ERGA-CH ERGA-CH
468188 Erebia ottomana Nymphalidae other_priority sample_acquired Kay ERGA-CH ERGA-CH ERGA-CH ERGA-CH ERGA-CH
468173 Erebia calcaria Nymphalidae other_priority sample_acquired Kay ERGA-CH ERGA-CH ERGA-CH ERGA-CH ERGA-CH
468179 Erebia graucasica Nymphalidae other_priority Kay ERGA-CH ERGA-CH ERGA-CH
468184 Erebia iranica Nymphalidae other_priority Kay ERGA-CH ERGA-CH ERGA-CH
372257 Carex binervis Cyperaceae other_priority data_generation Kay ERGA-CH ERGA-CH ERGA-CH ERGA-CH ERGA-CH ERGA-CH ERGA-CH
372271 Carex laevigata Cyperaceae other_priority data_generation Kay ERGA-CH ERGA-CH ERGA-CH ERGA-CH ERGA-CH ERGA-CH ERGA-CH
1081491 Carex reuteriana reuteriana Cyperaceae other_priority data_generation Kay ERGA-CH ERGA-CH ERGA-CH ERGA-CH ERGA-CH ERGA-CH ERGA-CH
1081489 Carex reuteriana mauritanica Cyperaceae other_priority data_generation Kay ERGA-CH ERGA-CH ERGA-CH ERGA-CH ERGA-CH ERGA-CH ERGA-CH
513294 Carex furva Cyperaceae other_priority sample_collected Kay ERGA-CH ERGA-CH ERGA-CH ERGA-CH
2041357 Carex lucennoiberica Cyperaceae other_priority sample_collected Kay ERGA-CH ERGA-CH ERGA-CH ERGA-CH
140792 Carex bohemica Cyperaceae other_priority sample_collected Kay ERGA-CH ERGA-CH ERGA-CH ERGA-CH
372268 Carex helodes  Cyperaceae other_priority sample_collected Kay ERGA-CH ERGA-CH ERGA-CH ERGA-CH
51 changes: 51 additions & 0 deletions sources/test_taxondir/FILE_ERGA-CH.types.yaml
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file:
format: tsv
header: true
comment: "#"
name: ERGA-CH_expanded.tsv
source: Declared Status List - ERGA-CH
source_date: 2023-07-06
source_description: ERGA Switzerland Branch Status List, live spreadsheet
source_contact: Robert Waterhouse, University of Lausanne and Swiss Institute of Bioinformatics, Switzerland
attributes:
long_list:
header: long_list
other_priority:
header: other_priority
family_representative:
header: family_representative
# contributing_project_lab:
# header: project
# translate:
# BGE: SSP Community Sampling
sequencing_status_erga-ch:
header: sequencing_status
translate:
data_generation: in_progress
in_assembly: in_progress
insdc_submitted: in_progress
sequencing_status:
header: sequencing_status
translate:
data_generation: in_progress
in_assembly: in_progress
insdc_submitted: in_progress
sample_collected:
header: sample_collected
sample_acquired:
header: sample_acquired
in_progress:
header: in_progress
open:
header: open
insdc_open:
header: insdc_open
published:
header: published
taxonomy:
taxon_id:
header: ncbi_taxon_id
species:
header: species
family:
header: family

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