From 47e69335ddac791a1a0077fbb6b8026980fbfdce Mon Sep 17 00:00:00 2001 From: apollo994 Date: Tue, 12 May 2026 13:56:24 +0200 Subject: [PATCH 01/10] test --- fab/annotations.tsv | 3 +++ fab/manifest.yaml | 9 +++++++++ 2 files changed, 12 insertions(+) create mode 100644 fab/annotations.tsv create mode 100644 fab/manifest.yaml diff --git a/fab/annotations.tsv b/fab/annotations.tsv new file mode 100644 index 0000000..b71beb6 --- /dev/null +++ b/fab/annotations.tsv @@ -0,0 +1,3 @@ +assembly_accession access_url +GCF_022695815.2 https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/022/695/815/GCF_022695815.1_EurotioJF033F_1/GCF_022695815.1_EurotioJF033F_1_genomic.gff.gz + diff --git a/fab/manifest.yaml b/fab/manifest.yaml new file mode 100644 index 0000000..70774f5 --- /dev/null +++ b/fab/manifest.yaml @@ -0,0 +1,9 @@ +# Copy this folder to / and replace values before opening a PR. +provider_name: "Fab Lab" +pipeline_method: "bho" +pipeline_version: "0.1.0" +project_display_name: "" +description: "a test" +contact_email: "pi123@example.org" +license: "CC-BY-4.0" +homepage_url: "https://genome.crg.es/annotrieve/annotations/" From 24f6300defd2235e2b2022be5b245c9a59bfdfda Mon Sep 17 00:00:00 2001 From: Fabio Zanarello <38885904+apollo994@users.noreply.github.com> Date: Tue, 12 May 2026 14:02:09 +0200 Subject: [PATCH 02/10] Fix assembly accession version in annotations.tsv --- fab/annotations.tsv | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/fab/annotations.tsv b/fab/annotations.tsv index b71beb6..e9e61a3 100644 --- a/fab/annotations.tsv +++ b/fab/annotations.tsv @@ -1,3 +1,3 @@ assembly_accession access_url -GCF_022695815.2 https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/022/695/815/GCF_022695815.1_EurotioJF033F_1/GCF_022695815.1_EurotioJF033F_1_genomic.gff.gz +GCF_022695815.1 https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/022/695/815/GCF_022695815.1_EurotioJF033F_1/GCF_022695815.1_EurotioJF033F_1_genomic.gff.gz From bae1b96963e2c6a6597082093103cad7b8ae9210 Mon Sep 17 00:00:00 2001 From: Fabio Zanarello <38885904+apollo994@users.noreply.github.com> Date: Tue, 12 May 2026 14:27:44 +0200 Subject: [PATCH 03/10] Update assembly accession in annotations.tsv --- fab/annotations.tsv | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/fab/annotations.tsv b/fab/annotations.tsv index e9e61a3..b71beb6 100644 --- a/fab/annotations.tsv +++ b/fab/annotations.tsv @@ -1,3 +1,3 @@ assembly_accession access_url -GCF_022695815.1 https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/022/695/815/GCF_022695815.1_EurotioJF033F_1/GCF_022695815.1_EurotioJF033F_1_genomic.gff.gz +GCF_022695815.2 https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/022/695/815/GCF_022695815.1_EurotioJF033F_1/GCF_022695815.1_EurotioJF033F_1_genomic.gff.gz From 239f8c570d076023ba0a0723b17c6cb652554d87 Mon Sep 17 00:00:00 2001 From: apollo994 Date: Tue, 12 May 2026 16:37:43 +0200 Subject: [PATCH 04/10] fix ass --- fab/annotations.tsv | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/fab/annotations.tsv b/fab/annotations.tsv index b71beb6..e9e61a3 100644 --- a/fab/annotations.tsv +++ b/fab/annotations.tsv @@ -1,3 +1,3 @@ assembly_accession access_url -GCF_022695815.2 https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/022/695/815/GCF_022695815.1_EurotioJF033F_1/GCF_022695815.1_EurotioJF033F_1_genomic.gff.gz +GCF_022695815.1 https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/022/695/815/GCF_022695815.1_EurotioJF033F_1/GCF_022695815.1_EurotioJF033F_1_genomic.gff.gz From 6dcf5c9bc49f68aacf62e0c1af64cc0350b4ce95 Mon Sep 17 00:00:00 2001 From: apollo994 Date: Tue, 12 May 2026 16:43:47 +0200 Subject: [PATCH 05/10] added line --- fab/annotations.tsv | 1 + 1 file changed, 1 insertion(+) diff --git a/fab/annotations.tsv b/fab/annotations.tsv index e9e61a3..9b8fe18 100644 --- a/fab/annotations.tsv +++ b/fab/annotations.tsv @@ -1,3 +1,4 @@ assembly_accession access_url GCF_022695815.1 https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/022/695/815/GCF_022695815.1_EurotioJF033F_1/GCF_022695815.1_EurotioJF033F_1_genomic.gff.gz +GCF_022695815.2 https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/022/695/815/GCF_022695815.1_EurotioJF033F_1/GCF_022695815.1_EurotioJF033F_1_genomic.gff.gz From 35e3fdb18d555c8a57e929cb7dffb977bf507821 Mon Sep 17 00:00:00 2001 From: apollo994 Date: Tue, 12 May 2026 16:48:36 +0200 Subject: [PATCH 06/10] added line --- fab/annotations.tsv | 1 + 1 file changed, 1 insertion(+) diff --git a/fab/annotations.tsv b/fab/annotations.tsv index 9b8fe18..993e9da 100644 --- a/fab/annotations.tsv +++ b/fab/annotations.tsv @@ -1,4 +1,5 @@ assembly_accession access_url GCF_022695815.1 https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/022/695/815/GCF_022695815.1_EurotioJF033F_1/GCF_022695815.1_EurotioJF033F_1_genomic.gff.gz GCF_022695815.2 https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/022/695/815/GCF_022695815.1_EurotioJF033F_1/GCF_022695815.1_EurotioJF033F_1_genomic.gff.gz +GCF_022695815.3 https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/022/695/815/GCF_022695815.1_EurotioJF033F_1/GCF_022695815.1_EurotioJF033F_1_genomic.gff.gz From e6166eaa8359061a2a7a036a8735067e4552f61b Mon Sep 17 00:00:00 2001 From: apollo994 Date: Tue, 12 May 2026 16:51:28 +0200 Subject: [PATCH 07/10] rm lines --- fab/annotations.tsv | 3 --- 1 file changed, 3 deletions(-) diff --git a/fab/annotations.tsv b/fab/annotations.tsv index 993e9da..5f719f7 100644 --- a/fab/annotations.tsv +++ b/fab/annotations.tsv @@ -1,5 +1,2 @@ assembly_accession access_url GCF_022695815.1 https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/022/695/815/GCF_022695815.1_EurotioJF033F_1/GCF_022695815.1_EurotioJF033F_1_genomic.gff.gz -GCF_022695815.2 https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/022/695/815/GCF_022695815.1_EurotioJF033F_1/GCF_022695815.1_EurotioJF033F_1_genomic.gff.gz -GCF_022695815.3 https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/022/695/815/GCF_022695815.1_EurotioJF033F_1/GCF_022695815.1_EurotioJF033F_1_genomic.gff.gz - From ac8ce7c552341db74db8e863d1baad79c7c870a5 Mon Sep 17 00:00:00 2001 From: apollo994 Date: Tue, 12 May 2026 17:01:45 +0200 Subject: [PATCH 08/10] test error --- fab/annotations.tsv | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/fab/annotations.tsv b/fab/annotations.tsv index 5f719f7..eafcdcb 100644 --- a/fab/annotations.tsv +++ b/fab/annotations.tsv @@ -1,2 +1,2 @@ assembly_accession access_url -GCF_022695815.1 https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/022/695/815/GCF_022695815.1_EurotioJF033F_1/GCF_022695815.1_EurotioJF033F_1_genomic.gff.gz +GCF_022695815.2 https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/022/695/815/GCF_022695815.1_EurotioJF033F_1/GCF_022695815.1_EurotioJF033F_1_genomic.gff.gz From 483ef5be94aa18c78e88d715570b6677c2e4be04 Mon Sep 17 00:00:00 2001 From: Fabio Zanarello <38885904+apollo994@users.noreply.github.com> Date: Thu, 14 May 2026 10:55:12 +0200 Subject: [PATCH 09/10] Update assembly accession in annotations.tsv --- fab/annotations.tsv | 1 + 1 file changed, 1 insertion(+) diff --git a/fab/annotations.tsv b/fab/annotations.tsv index eafcdcb..0bf6981 100644 --- a/fab/annotations.tsv +++ b/fab/annotations.tsv @@ -1,2 +1,3 @@ assembly_accession access_url +GCF_022695815.1 https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/022/695/815/GCF_022695815.1_EurotioJF033F_1/GCF_022695815.1_EurotioJF033F_1_genomic.gff.gz GCF_022695815.2 https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/022/695/815/GCF_022695815.1_EurotioJF033F_1/GCF_022695815.1_EurotioJF033F_1_genomic.gff.gz From 519042026e51bc98d61199f2bb7e5b9d704e8951 Mon Sep 17 00:00:00 2001 From: Fabio Zanarello <38885904+apollo994@users.noreply.github.com> Date: Thu, 14 May 2026 10:57:56 +0200 Subject: [PATCH 10/10] Fix duplicate entry for GCF_022695815.2 --- fab/annotations.tsv | 1 - 1 file changed, 1 deletion(-) diff --git a/fab/annotations.tsv b/fab/annotations.tsv index 0bf6981..5f719f7 100644 --- a/fab/annotations.tsv +++ b/fab/annotations.tsv @@ -1,3 +1,2 @@ assembly_accession access_url GCF_022695815.1 https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/022/695/815/GCF_022695815.1_EurotioJF033F_1/GCF_022695815.1_EurotioJF033F_1_genomic.gff.gz -GCF_022695815.2 https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/022/695/815/GCF_022695815.1_EurotioJF033F_1/GCF_022695815.1_EurotioJF033F_1_genomic.gff.gz