stick to usearch v11.0.667 like in the paper

KasperSkytte · Jun 18, 2024 · 3efaf4a · 3efaf4a
1 parent 996e005
commit 3efaf4a
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Showing 2 changed files with 9 additions and 7 deletions.
diff --git a/getsilvadb.sh b/getsilvadb.sh
@@ -154,12 +154,14 @@ namesDT <- data.table(ID = names[,1], tax = names[,2])
 
 #extract taxonomy into separate columns
 taxCols <- c("Kingdom", "Phylum", "Class", "Order", "Family", "Genus", "Species")
-sintax <- separate(
-  namesDT,
-  col = "tax",
-  into = taxCols,
-  sep = ";")
-setDT(sintax)
+sintax <- data.table(
+  separate(
+    namesDT,
+    col = "tax",
+    into = taxCols,
+    sep = ";"
+  )
+)
 
 #cleanup
 sintax[

diff --git a/test_result.log b/test_result.log
@@ -5,7 +5,7 @@ ok 3 silva_udb database file
 ok 4 typestrains_udb database file
 ok 5 Variable set: denovo_prefix
 ok 6 Variable set: maxthreads
-ok 7 usearch11 in $PATH
+ok 7 usearch in $PATH
 ok 8 sina in $PATH
 ok 9 R in $PATH
 ok 10 Rscript in $PATH