X-Git-Url: https://git.donarmstrong.com/?p=rsem.git;a=blobdiff_plain;f=rsem_perl_utils.pm;h=01a357651daf51b3578332c77fc6a64c26196e1d;hp=6355f67a07f88fcf4207407325542644c2c5a454;hb=92b24279a3ecc72946e7e7c23149ad0d181f373a;hpb=f054dfb3f9bb35d4043534ea88e1f5fa8e7eb2ea

diff --git a/rsem_perl_utils.pm b/rsem_perl_utils.pm
index 6355f67..01a3576 100644
--- a/rsem_perl_utils.pm
+++ b/rsem_perl_utils.pm
@@ -31,11 +31,11 @@ sub runCommand {
     print "\n";
 }
 
-my @allele_title = ("allele_id", "transcript_id", "gene_id", "length", "effective_length", "expected_count", "TPM", "FPKM", "AlleleIsoPct", "AlleleGenePct", "pme_expected_count", "pme_TPM", "pme_FPKM", "AlleleIsoPct_from_pme_TPM", "AlleleGenePct_from_pme_TPM", "TPM_ci_lower_bound", "TPM_ci_upper_bound", "FPKM_ci_lower_bound", "FPKM_ci_upper_bound");
+my @allele_title = ("allele_id", "transcript_id", "gene_id", "length", "effective_length", "expected_count", "TPM", "FPKM", "AlleleIsoPct", "AlleleGenePct", "posterior_mean_count", "posterior_standard_deviation_of_count", "pme_TPM", "pme_FPKM", "AlleleIsoPct_from_pme_TPM", "AlleleGenePct_from_pme_TPM", "TPM_ci_lower_bound", "TPM_ci_upper_bound", "FPKM_ci_lower_bound", "FPKM_ci_upper_bound");
 
-my @transcript_title = ("transcript_id", "gene_id", "length", "effective_length", "expected_count", "TPM", "FPKM", "IsoPct", "pme_expected_count", "pme_TPM", "pme_FPKM", "IsoPct_from_pme_TPM", "TPM_ci_lower_bound", "TPM_ci_upper_bound", "FPKM_ci_lower_bound", "FPKM_ci_upper_bound");
+my @transcript_title = ("transcript_id", "gene_id", "length", "effective_length", "expected_count", "TPM", "FPKM", "IsoPct", "posterior_mean_count", "posterior_standard_deviation_of_count", "pme_TPM", "pme_FPKM", "IsoPct_from_pme_TPM", "TPM_ci_lower_bound", "TPM_ci_upper_bound", "FPKM_ci_lower_bound", "FPKM_ci_upper_bound");
 
-my @gene_title = ("gene_id", "transcript_id(s)", "length", "effective_length", "expected_count", "TPM", "FPKM", "pme_expected_count", "pme_TPM", "pme_FPKM", "TPM_ci_lower_bound", "TPM_ci_upper_bound", "FPKM_ci_lower_bound", "FPKM_ci_upper_bound");
+my @gene_title = ("gene_id", "transcript_id(s)", "length", "effective_length", "expected_count", "TPM", "FPKM", "posterior_mean_count", "posterior_standard_deviation_of_count", "pme_TPM", "pme_FPKM", "TPM_ci_lower_bound", "TPM_ci_upper_bound", "FPKM_ci_lower_bound", "FPKM_ci_upper_bound");
 
 # type, inpF, outF
 sub collectResults {
@@ -86,9 +86,9 @@ sub collectResults {
     close(OUTPUT);
 }
 
-# dir
+# 0, dir
 sub showVersionInfo {
-    open(INPUT, "$_[0]\WHAT_IS_NEW");
+    open(INPUT, "$_[0]/WHAT_IS_NEW");
     my $line = <INPUT>;
     chomp($line);
     close(INPUT);