update reference files

juanjo255 · Oct 24, 2024 · b37c175 · b37c175
1 parent 016e31d
commit b37c175
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Showing 3 changed files with 5 additions and 5 deletions.
diff --git a/mitnanex_reference.sh b/mitnanex_reference.sh
@@ -4,7 +4,7 @@ bold=$(tput bold)
 normal=$(tput sgr0)
 color_red='\033[0;91m'
 color_cyan='\033[0;36m'
-no_color='\033[0m' 
+no_color='\033[0m'
 timestamp=$(date -u +"%Y-%m-%d %T")
 
 #DEFAULT
@@ -379,7 +379,7 @@ pipe_exec(){
             if [[ $no_filter -eq 1 ]]; then
                 filter_by_quality
             fi
-            map_reads
+            #map_reads
             variant_calling
 
         else
@@ -389,4 +389,4 @@ pipe_exec(){
     fi
 }
 
-pipe_exec
+pipe_exec
diff --git a/refseqMT/chrMT.dict b/refseqMT/chrMT.dict
@@ -1,2 +1,2 @@
 @HD	VN:1.6
-@SQ	SN:NC_012920.1	LN:16569	M5:c68f52674c9fb33aef52dcf399755519	UR:file:///home/jjpiconc/COL-HUMAN-PROJECT/chrMT.fna
+@SQ	SN:NC_012920.1	LN:16569	M5:c68f52674c9fb33aef52dcf399755519	UR:file:///home/jjpiconc/biocomp_tools/MITNANEX/refseqMT/chrMT.fna
diff --git a/refseqMT/chrMT.fna.fai b/refseqMT/chrMT.fna.fai
@@ -1 +1 @@
-NC_012920.1	16569	57	80	81
+NC_012920.1	16569	13	80	81
Original file line number	Diff line number	Diff line change
		@@ -1 +1 @@
		NC_012920.1 16569 57 80 81
		NC_012920.1 16569 13 80 81