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changeset 27:92c5ecb025b6 draft

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Uploaded
author johnheap
date Wed, 05 Jun 2019 16:17:30 -0400
parents 7983a9305b53
children be77587bdfda
files Tryp_V_T.py
diffstat 1 files changed, 5 insertions(+), 5 deletions(-) [+]
line wrap: on
line diff
--- a/Tryp_V_T.py	Wed Jun 05 05:54:10 2019 -0400
+++ b/Tryp_V_T.py	Wed Jun 05 16:17:30 2019 -0400
@@ -238,16 +238,16 @@
     return int(sac[1:i])
 
 def combineFPMK(tdict):
-    dir_path = os.path.dirname(os.path.realpath(__file__))+'/'
-
-    fpkm_df = pd.read_csv(dir_path+tdict['name']+'.cuff/genes.fpkm_tracking', sep='\t')
+    # dir_path = os.path.dirname(os.path.realpath(__file__))+'/'
+    cur_path = os.getcwd()+'/'
+    fpkm_df = pd.read_csv(cur_path+tdict['name']+'.cuff/genes.fpkm_tracking', sep='\t')
 
     #fpkm_df = pd.read_csv('genes.fpkm_tracking',sep='\t')
     #print(fpkm_df.head())
     fpkm_df['locus'] = fpkm_df['locus'].apply(lambda names: names[:names.find(':')])
     #print(fpkm_df.head())
 
-    reducedBlast_df = pd.read_csv(dir_path + tdict['name']+'_transcript.csv')
+    reducedBlast_df = pd.read_csv(cur_path + tdict['name']+'_transcript.csv')
     # reducedBlast_df = pd.read_csv('TrinityVT_transcript.csv')
     saccverSet = set(reducedBlast_df['saccver'])
     saccverList = list(saccverSet)
@@ -359,7 +359,7 @@
     plt.savefig(tdict['html_resource'] + tdict['name']+"_phylotypes.png")
     if tdict['pdf'] == 'PDF_Yes':
         plt.savefig(tdict['html_resource'] + tdict['name']+"phylotypes.pdf")
-    plt.show()
+#    plt.show()
     pass