CDCgov tostadas issues - Githubissues

CDCgov / tostadas

🧬 💻 TOSTADAS → Toolkit for Open Sequence Triage, Annotation and DAtabase Submission

https://cdcgov.github.io/tostadas/

Apache License 2.0

23 stars 6 forks source link

issues

Newest

Newest Most commented Recently updated Oldest Least commented Least recently updated

[External] [Bug] test fails at validation step

#201 ammaraziz opened 1 month ago
0
Rsv vadr refactor kao

#200 jessicarowell closed 3 months ago
0
[External] [Feature] Clarify Conda Requirement

#199 garfinjm opened 4 months ago
0
[Internal] [Feature] Make these custom field validations "smarter"

#198 jessicarowell opened 5 months ago
0
Submission fasta reroute ick4

#197 jessicarowell closed 5 months ago
0
Patch concatgffs ick4

#196 jessicarowell closed 5 months ago
0
write fasta straight to Genbank file instead of merging with metadata first

#195 jessicarowell closed 5 months ago
0
Test data variola update kao

#194 jessicarowell closed 5 months ago
0
change container from seqsender to tostadas

#193 jessicarowell closed 5 months ago
0
Fix null path error for submission

#192 kyleoconnell closed 5 months ago
0
[Internal] [Bug] fasta_path cannot be empty (sra-only submissions)

#191 jessicarowell closed 5 months ago
0
User provided annotations for genbank submission

#190 kyleoconnell closed 5 months ago
1
[Internal] [Feature] Accommodate additional biosample metadata templates starting with wastewater

#189 kyleoconnell opened 5 months ago
0
Update container ick4

#188 jessicarowell closed 5 months ago
0
Submission ch path kao

#187 kyleoconnell closed 5 months ago
0
fixed channel mixup and removed remnants of utility function

#186 kyleoconnell closed 5 months ago
0
removed utility signal and cleanup files

#185 kyleoconnell closed 5 months ago
0
Seqera suggestions

#184 robsyme closed 5 months ago
0
[Internal] [Feature] Ensure metadata validation is checking all fields required for NCBI submission

#183 kyleoconnell opened 6 months ago
0
Update README.md

#182 RamiyapriyaS closed 6 months ago
0
[Internal] [Feature] Recode SeqSender to modify data validation

#181 kyleoconnell opened 6 months ago
0
Update README.md

#180 RamiyapriyaS closed 6 months ago
0
Samplesheet check metadata ufp0

#179 kyleoconnell closed 5 months ago
0
Samplesheet check metadata ufp0

#178 jessicarowell closed 6 months ago
0
Params and metadata fix ick4

#177 jessicarowell closed 6 months ago
0
[Internal] [Feature] Evaluate if we need Run_utility or not

#176 kyleoconnell closed 5 months ago
1
Update modules .config

#175 kyleoconnell closed 5 months ago
0
Update README.md

#174 RamiyapriyaS closed 6 months ago
0
[Internal] [Bug] Won't accept any 'dots' in sample file names

#173 jessicarowell opened 6 months ago
0
[Internal] [Feature] Refactor to support nanopore data

#172 jessicarowell opened 6 months ago
0
change the . to - in species ID, in multifasta and metadata

#171 jessicarowell closed 6 months ago
0
Add bakta missing ick4

#170 jessicarowell closed 6 months ago
0
[Internal] [Feature] Evaluate if we need 'Check Files' Module.

#169 kyleoconnell closed 6 months ago
1
update test data

#168 jessicarowell closed 6 months ago
0
Seqsender update

#167 jessicarowell closed 6 months ago
0
update staphb container yml file for new seqsender code

#166 jessicarowell closed 5 months ago
0
Merging into Dev instead of Main.

#165 kyleoconnell closed 5 months ago
0
merge refactoring of bakta to a single subworkflow into dev

#164 jessicarowell closed 6 months ago
0
merge bakta module fixes into dev

#163 jessicarowell closed 6 months ago
0
161 refactor bakta with extra params

#162 kyleoconnell closed 6 months ago
0
[Internal] [Test] Refactor BAKTA to a single subworkflow instead of calling the processes in the main workflow.

#161 kyleoconnell closed 6 months ago
0
[Internal] [Bug] **Installation for CDC**

#160 lskatz closed 6 months ago
1
Bakta Refresh

#159 kyleoconnell closed 6 months ago
0
[Internal] [Feature] Convert param validation to nf-core validation plugin

#158 kyleoconnell closed 6 months ago
1
Add new test data kao

#157 kyleoconnell closed 6 months ago
0
GitHub pages to master

#156 macoven-del closed 6 months ago
1
[Internal] [Feature] Move viral and bacterial annotation to subworkflows

#155 kyleoconnell closed 6 months ago
0
[Internal] [Feature] Check metadata date format

#154 kyleoconnell opened 7 months ago
0
Dev

#153 kyleoconnell closed 7 months ago
0
Subworkflow refactor kao (update to nf-core standards)

#152 kyleoconnell closed 7 months ago
0