[IGBF-4006] Update IGB's species and synonyms files - JIRA UNCC

Details

Type: Task
Status: Closed (View Workflow)
Priority: Major
Resolution: Done
Affects Version/s: None
Fix Version/s: 10.2.0
Labels:
None

Story Points:
0.25
Epic Link:
Add genomes requested during SDB
Sprint:
Winter 1, Spring 1, Spring 2, Spring 3

Description

Situation: I've prepared four new genomes to be added to IGB Quickload via svn. Now, IGB's species and synonym's files need to be updated so that these genomes can be included in a future IGB release.

Task: Add the following to IGB's species.txt and synonyms.txt files:

species.txt

Aedes albopictus	Asian tiger mosquito	A_albopictus
Capitella teleta	Capitella teleta	C_teleta
Dama dama	Fallow deer	D_dama
Hydra vulgaris	Swiftwater hydra	H_vulgaris
Oryzias latipes	Japanese medaka	O_latipes
Vanessa cardui	Painted lady	V_cardui

synonyms.txt

A_albopictus_Jan_2024	AalbF5
C_teleta_Jan_2013	Capca1
D_dama_Nov_2023	ASM3311817v1
H_vulgaris_Feb_2022	HydraT2T_AEP
O_latipes_Jul_2017	ASM223467v1
V_cardui_Feb_2021	ilVanCard2.1

Attachments

Activity

Ascending order - Click to sort in descending order

Paige Kulzer (Inactive) created issue - 12/Dec/24 1:22 PM

Paige Kulzer (Inactive) made changes - 12/Dec/24 1:22 PM

Field	Original Value	New Value
Epic Link		IGBF-3823 [ 23122 ]

Ann Loraine made changes - 21/Jan/25 1:02 AM

Sprint

Winter 1 [ 209 ]

Winter 1, Spring 1 [ 209, 210 ]

Ann Loraine made changes - 21/Jan/25 1:02 AM

Rank

Ranked higher

Nowlan Freese made changes - 22/Jan/25 12:17 PM

Status

To-Do [ 10305 ]

In Progress [ 3 ]

Nowlan Freese made changes - 27/Jan/25 1:59 PM

Status

In Progress [ 3 ]

To-Do [ 10305 ]

Ann Loraine made changes - 10/Feb/25 8:03 AM

Sprint

Winter 1, Spring 1 [ 209, 210 ]

Winter 1, Spring 1, Spring 2 [ 209, 210, 211 ]

Ann Loraine made changes - 10/Feb/25 8:03 AM

Rank

Ranked higher

Ann Loraine made changes - 24/Feb/25 8:01 AM

Sprint

Winter 1, Spring 1, Spring 2 [ 209, 210, 211 ]

Winter 1, Spring 1, Spring 2, Spring 3 [ 209, 210, 211, 212 ]

Ann Loraine made changes - 24/Feb/25 8:01 AM

Rank

Ranked higher

Nowlan Freese made changes - 24/Feb/25 10:50 AM

Description

*Situation*: I've prepared four new genomes to be added to IGB Quickload via svn. Now, IGB's species and synonym's files need to be updated so that these genomes can be included in a future IGB release.

*Task*: Add the following to IGB's species.txt and synonyms.txt files:

+species.txt+
{noformat}
Capitella teleta Capitella teleta C_teleta
Hydra vulgaris Fresh-water polyp H_vulgaris
Oryzias latipes Japanese rice fish O_latipes
Vanessa cardui Painted lady V_cardui
{noformat}

+synonyms.txt+
{noformat}
C_teleta_Jan_2013 Capitella teleta Capca1
H_vulgaris_Feb_2022 Hydra vulgaris HydraT2T_AEP
O_latipes_Jul_2017 Oryzias latipes ASM223467v1
V_cardui_Feb_2021 Vanessa cardui ilVanCard2.1
{noformat}

*Situation*: I've prepared four new genomes to be added to IGB Quickload via svn. Now, IGB's species and synonym's files need to be updated so that these genomes can be included in a future IGB release.

*Task*: Add the following to IGB's species.txt and synonyms.txt files:

+species.txt+
{noformat}
Aedes albopictus Asian tiger mosquito A_albopictus
Capitella teleta Capitella teleta C_teleta
Dama dama Fallow deer D_dama
Hydra vulgaris Fresh-water polyp H_vulgaris
Oryzias latipes Japanese rice fish O_latipes
Vanessa cardui Painted lady V_cardui
{noformat}

+synonyms.txt+
{noformat}
A_albopictus_Jan_2024 Aedes albopictus AalbF5
C_teleta_Jan_2013 Capitella teleta Capca1
D_dama_Nov_2023 Dama dama ASM3311817v1
H_vulgaris_Feb_2022 Hydra vulgaris HydraT2T_AEP
O_latipes_Jul_2017 Oryzias latipes ASM223467v1
V_cardui_Feb_2021 Vanessa cardui ilVanCard2.1
{noformat}

Nowlan Freese made changes - 24/Feb/25 10:50 AM

Status

To-Do [ 10305 ]

In Progress [ 3 ]

Nowlan Freese made changes - 24/Feb/25 11:52 AM

Description

*Situation*: I've prepared four new genomes to be added to IGB Quickload via svn. Now, IGB's species and synonym's files need to be updated so that these genomes can be included in a future IGB release.

*Task*: Add the following to IGB's species.txt and synonyms.txt files:

+species.txt+
{noformat}
Aedes albopictus Asian tiger mosquito A_albopictus
Capitella teleta Capitella teleta C_teleta
Dama dama Fallow deer D_dama
Hydra vulgaris Fresh-water polyp H_vulgaris
Oryzias latipes Japanese rice fish O_latipes
Vanessa cardui Painted lady V_cardui
{noformat}

+synonyms.txt+
{noformat}
A_albopictus_Jan_2024 Aedes albopictus AalbF5
C_teleta_Jan_2013 Capitella teleta Capca1
D_dama_Nov_2023 Dama dama ASM3311817v1
H_vulgaris_Feb_2022 Hydra vulgaris HydraT2T_AEP
O_latipes_Jul_2017 Oryzias latipes ASM223467v1
V_cardui_Feb_2021 Vanessa cardui ilVanCard2.1
{noformat}

*Situation*: I've prepared four new genomes to be added to IGB Quickload via svn. Now, IGB's species and synonym's files need to be updated so that these genomes can be included in a future IGB release.

*Task*: Add the following to IGB's species.txt and synonyms.txt files:

+species.txt+
{noformat}
Aedes albopictus Asian tiger mosquito A_albopictus
Capitella teleta Capitella teleta C_teleta
Dama dama Fallow deer D_dama
Hydra vulgaris Fresh-water polyp H_vulgaris
Oryzias latipes Japanese rice fish O_latipes
Vanessa cardui Painted lady V_cardui
{noformat}

+synonyms.txt+
{noformat}
A_albopictus_Jan_2024 AalbF5
C_teleta_Jan_2013 Capca1
D_dama_Nov_2023 ASM3311817v1
H_vulgaris_Feb_2022 HydraT2T_AEP
O_latipes_Jul_2017 ASM223467v1
V_cardui_Feb_2021 ilVanCard2.1
{noformat}

Nowlan Freese made changes - 24/Feb/25 11:56 AM

Status

In Progress [ 3 ]

Needs 1st Level Review [ 10005 ]

Nowlan Freese made changes - 24/Feb/25 11:56 AM

Assignee

Nowlan Freese [ nfreese ]

Paige Kulzer (Inactive) made changes - 27/Feb/25 9:41 AM

Assignee

Paige Kulzer [ pkulzer ]

Paige Kulzer (Inactive) made changes - 27/Feb/25 9:41 AM

Status

Needs 1st Level Review [ 10005 ]

First Level Review in Progress [ 10301 ]

Paige Kulzer (Inactive) made changes - 27/Feb/25 10:18 AM

Status

First Level Review in Progress [ 10301 ]

To-Do [ 10305 ]

Paige Kulzer (Inactive) made changes - 27/Feb/25 10:18 AM

Assignee

Paige Kulzer [ pkulzer ]

Nowlan Freese [ nfreese ]

Nowlan Freese made changes - 06/Mar/25 3:10 PM

Description

*Situation*: I've prepared four new genomes to be added to IGB Quickload via svn. Now, IGB's species and synonym's files need to be updated so that these genomes can be included in a future IGB release.

*Task*: Add the following to IGB's species.txt and synonyms.txt files:

+species.txt+
{noformat}
Aedes albopictus Asian tiger mosquito A_albopictus
Capitella teleta Capitella teleta C_teleta
Dama dama Fallow deer D_dama
Hydra vulgaris Fresh-water polyp H_vulgaris
Oryzias latipes Japanese rice fish O_latipes
Vanessa cardui Painted lady V_cardui
{noformat}

+synonyms.txt+
{noformat}
A_albopictus_Jan_2024 AalbF5
C_teleta_Jan_2013 Capca1
D_dama_Nov_2023 ASM3311817v1
H_vulgaris_Feb_2022 HydraT2T_AEP
O_latipes_Jul_2017 ASM223467v1
V_cardui_Feb_2021 ilVanCard2.1
{noformat}

*Situation*: I've prepared four new genomes to be added to IGB Quickload via svn. Now, IGB's species and synonym's files need to be updated so that these genomes can be included in a future IGB release.

*Task*: Add the following to IGB's species.txt and synonyms.txt files:

+species.txt+
{noformat}
Aedes albopictus Asian tiger mosquito A_albopictus
Capitella teleta Capitella teleta C_teleta
Dama dama Fallow deer D_dama
Hydra vulgaris Swiftwater hydra H_vulgaris
Oryzias latipes Japanese rice fish O_latipes
Vanessa cardui Painted lady V_cardui
{noformat}

+synonyms.txt+
{noformat}
A_albopictus_Jan_2024 AalbF5
C_teleta_Jan_2013 Capca1
D_dama_Nov_2023 ASM3311817v1
H_vulgaris_Feb_2022 HydraT2T_AEP
O_latipes_Jul_2017 ASM223467v1
V_cardui_Feb_2021 ilVanCard2.1
{noformat}

Nowlan Freese made changes - 06/Mar/25 3:14 PM

Description

*Situation*: I've prepared four new genomes to be added to IGB Quickload via svn. Now, IGB's species and synonym's files need to be updated so that these genomes can be included in a future IGB release.

*Task*: Add the following to IGB's species.txt and synonyms.txt files:

+species.txt+
{noformat}
Aedes albopictus Asian tiger mosquito A_albopictus
Capitella teleta Capitella teleta C_teleta
Dama dama Fallow deer D_dama
Hydra vulgaris Swiftwater hydra H_vulgaris
Oryzias latipes Japanese rice fish O_latipes
Vanessa cardui Painted lady V_cardui
{noformat}

+synonyms.txt+
{noformat}
A_albopictus_Jan_2024 AalbF5
C_teleta_Jan_2013 Capca1
D_dama_Nov_2023 ASM3311817v1
H_vulgaris_Feb_2022 HydraT2T_AEP
O_latipes_Jul_2017 ASM223467v1
V_cardui_Feb_2021 ilVanCard2.1
{noformat}

*Situation*: I've prepared four new genomes to be added to IGB Quickload via svn. Now, IGB's species and synonym's files need to be updated so that these genomes can be included in a future IGB release.

*Task*: Add the following to IGB's species.txt and synonyms.txt files:

+species.txt+
{noformat}
Aedes albopictus Asian tiger mosquito A_albopictus
Capitella teleta Capitella teleta C_teleta
Dama dama Fallow deer D_dama
Hydra vulgaris Swiftwater hydra H_vulgaris
Oryzias latipes Japanese medaka O_latipes
Vanessa cardui Painted lady V_cardui
{noformat}

+synonyms.txt+
{noformat}
A_albopictus_Jan_2024 AalbF5
C_teleta_Jan_2013 Capca1
D_dama_Nov_2023 ASM3311817v1
H_vulgaris_Feb_2022 HydraT2T_AEP
O_latipes_Jul_2017 ASM223467v1
V_cardui_Feb_2021 ilVanCard2.1
{noformat}

Nowlan Freese made changes - 06/Mar/25 3:15 PM

Status

To-Do [ 10305 ]

In Progress [ 3 ]

Nowlan Freese made changes - 06/Mar/25 3:32 PM

Status

In Progress [ 3 ]

Needs 1st Level Review [ 10005 ]

Nowlan Freese made changes - 06/Mar/25 3:32 PM

Assignee

Nowlan Freese [ nfreese ]

Paige Kulzer [ pkulzer ]

Paige Kulzer (Inactive) made changes - 07/Mar/25 10:23 AM

Status

Needs 1st Level Review [ 10005 ]

First Level Review in Progress [ 10301 ]

Paige Kulzer (Inactive) made changes - 07/Mar/25 10:42 AM

Status

First Level Review in Progress [ 10301 ]

Ready for Pull Request [ 10304 ]

Paige Kulzer (Inactive) made changes - 07/Mar/25 10:42 AM

Assignee

Paige Kulzer [ pkulzer ]

Nowlan Freese [ nfreese ]

Nowlan Freese made changes - 07/Mar/25 11:30 AM

Status

Ready for Pull Request [ 10304 ]

Pull Request Submitted [ 10101 ]

Nowlan Freese made changes - 07/Mar/25 11:31 AM

Assignee

Nowlan Freese [ nfreese ]

Nowlan Freese made changes - 11/Mar/25 10:06 AM

Assignee

Ann Loraine [ aloraine ]

Ann Loraine made changes - 11/Mar/25 12:23 PM

Status

Pull Request Submitted [ 10101 ]

Reviewing Pull Request [ 10303 ]

Ann Loraine made changes - 11/Mar/25 12:51 PM

Status

Reviewing Pull Request [ 10303 ]

Merged Needs Testing [ 10002 ]

Ann Loraine made changes - 11/Mar/25 12:51 PM

Assignee

Ann Loraine [ aloraine ]

Nowlan Freese made changes - 13/Mar/25 1:26 PM

Assignee

Paige Kulzer [ pkulzer ]

Paige Kulzer (Inactive) made changes - 14/Mar/25 9:37 AM

Status

Merged Needs Testing [ 10002 ]

Post-merge Testing In Progress [ 10003 ]

Paige Kulzer (Inactive) made changes - 14/Mar/25 9:56 AM

Resolution		Done [ 10000 ]
Status	Post-merge Testing In Progress [ 10003 ]	Closed [ 6 ]

Paige Kulzer (Inactive) made changes - 14/Mar/25 9:56 AM

Assignee

Paige Kulzer [ pkulzer ]

Nowlan Freese [ nfreese ]

Paige Kulzer (Inactive) made changes - 02/Dec/25 10:39 AM

Fix Version/s

10.2.0 [ 11100 ]

People

Assignee:

Nowlan Freese

Reporter:

Paige Kulzer (Inactive)

Votes:

0 Vote for this issue

Watchers:

3 Start watching this issue

Dates

Created:

12/Dec/24 1:22 PM

Updated:

02/Dec/25 10:39 AM

Resolved:

14/Mar/25 9:56 AM