From fb1a36e4bbb268236c5b042b846e9436b561a39e Mon Sep 17 00:00:00 2001 From: Victor Lin <13424970+victorlin@users.noreply.github.com> Date: Fri, 3 May 2024 10:57:19 -0700 Subject: [PATCH] =?UTF-8?q?=E2=9B=94=EF=B8=8F=20DROP:=20run=20asia=20build?= =?UTF-8?q?s=20only?= MIME-Version: 1.0 Content-Type: text/plain; charset=UTF-8 Content-Transfer-Encoding: 8bit --- .../nextstrain-gisaid/builds.yaml | 95 ------------------- .../nextstrain-open/builds.yaml | 95 ------------------- 2 files changed, 190 deletions(-) diff --git a/nextstrain_profiles/nextstrain-gisaid/builds.yaml b/nextstrain_profiles/nextstrain-gisaid/builds.yaml index f13692a33..d85147a5b 100644 --- a/nextstrain_profiles/nextstrain-gisaid/builds.yaml +++ b/nextstrain_profiles/nextstrain-gisaid/builds.yaml @@ -38,37 +38,6 @@ inputs: # # Auspice config is specified in rule auspice_config in export_for_nextstrain.smk builds: - reference: - subsampling_scheme: nextstrain_reference - title: Genomic epidemiology of SARS-CoV-2 with clade-focused subsampling - global_1m: - subsampling_scheme: nextstrain_global_1m - title: Genomic epidemiology of SARS-CoV-2 with subsampling focused globally over the past month - global_2m: - subsampling_scheme: nextstrain_global_2m - title: Genomic epidemiology of SARS-CoV-2 with subsampling focused globally over the past 2 months - global_6m: - subsampling_scheme: nextstrain_global_6m - title: Genomic epidemiology of SARS-CoV-2 with subsampling focused globally over the past 6 months - global_all-time: - subsampling_scheme: nextstrain_global_all_time - title: Genomic epidemiology of SARS-CoV-2 with subsampling focused globally since pandemic start - africa_1m: - subsampling_scheme: nextstrain_region_grouped_by_country_1m - region: Africa - title: Genomic epidemiology of SARS-CoV-2 with subsampling focused on Africa over the past month - africa_2m: - subsampling_scheme: nextstrain_region_grouped_by_country_2m - region: Africa - title: Genomic epidemiology of SARS-CoV-2 with subsampling focused on Africa over the past 2 months - africa_6m: - subsampling_scheme: nextstrain_region_grouped_by_country_6m - region: Africa - title: Genomic epidemiology of SARS-CoV-2 with subsampling focused on Africa over the past 6 months - africa_all-time: - subsampling_scheme: nextstrain_region_grouped_by_country_all_time - region: Africa - title: Genomic epidemiology of SARS-CoV-2 with subsampling focused on Africa since pandemic start asia_1m: subsampling_scheme: nextstrain_region_asia_grouped_by_division_1m region: Asia @@ -85,70 +54,6 @@ builds: subsampling_scheme: nextstrain_region_asia_grouped_by_division_all_time region: Asia title: Genomic epidemiology of SARS-CoV-2 with subsampling focused on Asia since pandemic start - europe_1m: - subsampling_scheme: nextstrain_region_grouped_by_country_1m - region: Europe - title: Genomic epidemiology of SARS-CoV-2 with subsampling focused on Europe over the past month - europe_2m: - subsampling_scheme: nextstrain_region_grouped_by_country_2m - region: Europe - title: Genomic epidemiology of SARS-CoV-2 with subsampling focused on Europe over the past 2 months - europe_6m: - subsampling_scheme: nextstrain_region_grouped_by_country_6m - region: Europe - title: Genomic epidemiology of SARS-CoV-2 with subsampling focused on Europe over the past 6 months - europe_all-time: - subsampling_scheme: nextstrain_region_grouped_by_country_all_time - region: Europe - title: Genomic epidemiology of SARS-CoV-2 with subsampling focused on Europe since pandemic start - north-america_1m: - subsampling_scheme: nextstrain_region_grouped_by_division_1m - region: North America - title: Genomic epidemiology of SARS-CoV-2 with subsampling focused on North America over the past month - north-america_2m: - subsampling_scheme: nextstrain_region_grouped_by_division_2m - region: North America - title: Genomic epidemiology of SARS-CoV-2 with subsampling focused on North America over the past 2 months - north-america_6m: - subsampling_scheme: nextstrain_region_grouped_by_division_6m - region: North America - title: Genomic epidemiology of SARS-CoV-2 with subsampling focused on North America over the past 6 months - north-america_all-time: - subsampling_scheme: nextstrain_region_grouped_by_division_all_time - region: North America - title: Genomic epidemiology of SARS-CoV-2 with subsampling focused on North America since pandemic start - oceania_1m: - subsampling_scheme: nextstrain_region_grouped_by_division_1m - region: Oceania - title: Genomic epidemiology of SARS-CoV-2 with subsampling focused on Oceania over the past month - oceania_2m: - subsampling_scheme: nextstrain_region_grouped_by_division_2m - region: Oceania - title: Genomic epidemiology of SARS-CoV-2 with subsampling focused on Oceania over the past 2 months - oceania_6m: - subsampling_scheme: nextstrain_region_grouped_by_division_6m - region: Oceania - title: Genomic epidemiology of SARS-CoV-2 with subsampling focused on Oceania over the past 6 months - oceania_all-time: - subsampling_scheme: nextstrain_region_grouped_by_division_all_time - region: Oceania - title: Genomic epidemiology of SARS-CoV-2 with subsampling focused on Oceania since pandemic start - south-america_1m: - subsampling_scheme: nextstrain_region_grouped_by_country_1m - region: South America - title: Genomic epidemiology of SARS-CoV-2 with subsampling focused on South America over the past month - south-america_2m: - subsampling_scheme: nextstrain_region_grouped_by_country_2m - region: South America - title: Genomic epidemiology of SARS-CoV-2 with subsampling focused on South America over the past 2 months - south-america_6m: - subsampling_scheme: nextstrain_region_grouped_by_country_6m - region: South America - title: Genomic epidemiology of SARS-CoV-2 with subsampling focused on South America over the past 6 months - south-america_all-time: - subsampling_scheme: nextstrain_region_grouped_by_country_all_time - region: South America - title: Genomic epidemiology of SARS-CoV-2 with subsampling focused on South America since pandemic start # remove sequences without division label in US filter: diff --git a/nextstrain_profiles/nextstrain-open/builds.yaml b/nextstrain_profiles/nextstrain-open/builds.yaml index d7709518b..753b301a8 100644 --- a/nextstrain_profiles/nextstrain-open/builds.yaml +++ b/nextstrain_profiles/nextstrain-open/builds.yaml @@ -38,37 +38,6 @@ inputs: # # Auspice config is specified in rule auspice_config in export_for_nextstrain.smk builds: - reference: - subsampling_scheme: nextstrain_reference - title: Genomic epidemiology of SARS-CoV-2 with clade-focused subsampling - global_1m: - subsampling_scheme: nextstrain_global_1m - title: Genomic epidemiology of SARS-CoV-2 with subsampling focused globally over the past month - global_2m: - subsampling_scheme: nextstrain_global_2m - title: Genomic epidemiology of SARS-CoV-2 with subsampling focused globally over the past 2 months - global_6m: - subsampling_scheme: nextstrain_global_6m - title: Genomic epidemiology of SARS-CoV-2 with subsampling focused globally over the past 6 months - global_all-time: - subsampling_scheme: nextstrain_global_all_time - title: Genomic epidemiology of SARS-CoV-2 with subsampling focused globally since pandemic start - africa_1m: - subsampling_scheme: nextstrain_region_grouped_by_country_1m - region: Africa - title: Genomic epidemiology of SARS-CoV-2 with subsampling focused on Africa over the past month - africa_2m: - subsampling_scheme: nextstrain_region_grouped_by_country_2m - region: Africa - title: Genomic epidemiology of SARS-CoV-2 with subsampling focused on Africa over the past 2 months - africa_6m: - subsampling_scheme: nextstrain_region_grouped_by_country_6m - region: Africa - title: Genomic epidemiology of SARS-CoV-2 with subsampling focused on Africa over the past 6 months - africa_all-time: - subsampling_scheme: nextstrain_region_grouped_by_country_all_time - region: Africa - title: Genomic epidemiology of SARS-CoV-2 with subsampling focused on Africa since pandemic start asia_1m: subsampling_scheme: nextstrain_region_asia_grouped_by_division_1m region: Asia @@ -85,70 +54,6 @@ builds: subsampling_scheme: nextstrain_region_asia_grouped_by_division_all_time region: Asia title: Genomic epidemiology of SARS-CoV-2 with subsampling focused on Asia since pandemic start - europe_1m: - subsampling_scheme: nextstrain_region_grouped_by_country_1m - region: Europe - title: Genomic epidemiology of SARS-CoV-2 with subsampling focused on Europe over the past month - europe_2m: - subsampling_scheme: nextstrain_region_grouped_by_country_2m - region: Europe - title: Genomic epidemiology of SARS-CoV-2 with subsampling focused on Europe over the past 2 months - europe_6m: - subsampling_scheme: nextstrain_region_grouped_by_country_6m - region: Europe - title: Genomic epidemiology of SARS-CoV-2 with subsampling focused on Europe over the past 6 months - europe_all-time: - subsampling_scheme: nextstrain_region_grouped_by_country_all_time - region: Europe - title: Genomic epidemiology of SARS-CoV-2 with subsampling focused on Europe since pandemic start - north-america_1m: - subsampling_scheme: nextstrain_region_grouped_by_division_1m - region: North America - title: Genomic epidemiology of SARS-CoV-2 with subsampling focused on North America over the past month - north-america_2m: - subsampling_scheme: nextstrain_region_grouped_by_division_2m - region: North America - title: Genomic epidemiology of SARS-CoV-2 with subsampling focused on North America over the past 2 months - north-america_6m: - subsampling_scheme: nextstrain_region_grouped_by_division_6m - region: North America - title: Genomic epidemiology of SARS-CoV-2 with subsampling focused on North America over the past 6 months - north-america_all-time: - subsampling_scheme: nextstrain_region_grouped_by_division_all_time - region: North America - title: Genomic epidemiology of SARS-CoV-2 with subsampling focused on North America since pandemic start - oceania_1m: - subsampling_scheme: nextstrain_region_grouped_by_division_1m - region: Oceania - title: Genomic epidemiology of SARS-CoV-2 with subsampling focused on Oceania over the past month - oceania_2m: - subsampling_scheme: nextstrain_region_grouped_by_division_2m - region: Oceania - title: Genomic epidemiology of SARS-CoV-2 with subsampling focused on Oceania over the past 2 months - oceania_6m: - subsampling_scheme: nextstrain_region_grouped_by_division_6m - region: Oceania - title: Genomic epidemiology of SARS-CoV-2 with subsampling focused on Oceania over the past 6 months - oceania_all-time: - subsampling_scheme: nextstrain_region_grouped_by_division_all_time - region: Oceania - title: Genomic epidemiology of SARS-CoV-2 with subsampling focused on Oceania since pandemic start - south-america_1m: - subsampling_scheme: nextstrain_region_grouped_by_country_1m - region: South America - title: Genomic epidemiology of SARS-CoV-2 with subsampling focused on South America over the past month - south-america_2m: - subsampling_scheme: nextstrain_region_grouped_by_country_2m - region: South America - title: Genomic epidemiology of SARS-CoV-2 with subsampling focused on South America over the past 2 months - south-america_6m: - subsampling_scheme: nextstrain_region_grouped_by_country_6m - region: South America - title: Genomic epidemiology of SARS-CoV-2 with subsampling focused on South America over the past 6 months - south-america_all-time: - subsampling_scheme: nextstrain_region_grouped_by_country_all_time - region: South America - title: Genomic epidemiology of SARS-CoV-2 with subsampling focused on South America since pandemic start # remove sequences without division label in US filter: