chaopower
/
pipeline
1
0
Fork 0
Code Issues Pull Requests Packages Projects Releases Wiki Activity

更新indication

master
chaopower 2023-12-15 14:41:03 +08:00
parent 5fb3c8d8f0
commit ede3ac96a3
1 changed files with 8 additions and 9 deletions
Show Stats Download Patch File Download Diff File Expand all files Collapse all files

17
codes/indication.pl
View File

@ -6,10 +6,12 @@ die "useage:perl $0 output_dir cancer_type project" unless @ARGV == 3;
my ($output_dir, $cancer_type, $project) = @ARGV; my ($output_dir, $cancer_type, $project) = @ARGV;
my $len = length($cancer_type); my $len = length($cancer_type);
if ($len < 4) { if ($len < 4) {
die "cancer_type 非ST开头且4位长度"; die "cancer_type 非ST开头且4位长度";
} }
else {
$cancer_type = substr($cancer_type, 0, 4);
}
my $database_path = defined $ENV{'DATABASE'} ? $ENV{'DATABASE'} : "/dataseq/jmdna/codes/reportbase"; my $database_path = defined $ENV{'DATABASE'} ? $ENV{'DATABASE'} : "/dataseq/jmdna/codes/reportbase";
@ -31,14 +33,11 @@ while (<DIS>) {
foreach my $ID ($cancer_type) { foreach my $ID ($cancer_type) {
my @family; my @family;
# my @ids = split("", $ID); my @ids = split("", $ID);
# for (my $i = 1; $i < @ids; $i = $i + 2) { for (my $i = 1; $i < @ids; $i = $i + 2) {
# push @family, join("", @ids[0 .. $i]); push @family, join("", @ids[0 .. $i]);
# } }
# 取前 4位 再加上ST push @family, (grep {/^$ID/} @id);
my $match_id = substr($cancer_type, 0, 4);
push @family, (grep {/^$match_id/} @id);
push @family, "ST";
foreach my $t (@family) { foreach my $t (@family) {
push @{$dis2{$ID}}, @{$dis2{$t}}; push @{$dis2{$ID}}, @{$dis2{$t}};
} }