added fix for parsing

Gemfile.lock

@@ -144,7 +144,7 @@ GEM
       guard (~> 2.1)
       guard-compat (~> 1.1)
       rspec (>= 2.99.0, < 4.0)
-    hashdiff (0.2.3)
+    hashdiff (0.3.0)
     highline (1.7.8)
     http-cookie (1.0.2)
       domain_name (~> 0.5)
@@ -164,9 +164,9 @@ GEM
       sprockets (> 2, < 4)
       tilt
     libv8 (3.16.14.13)
-    listen (3.0.5)
+    listen (3.0.6)
       rb-fsevent (>= 0.9.3)
-      rb-inotify (>= 0.9)
+      rb-inotify (>= 0.9.7)
     lograge (0.3.5)
       actionpack (>= 3)
       activesupport (>= 3)
@@ -187,7 +187,7 @@ GEM
     mocha (1.1.0)
       metaclass (~> 0.0.1)
     multi_json (1.11.2)
-    nenv (0.2.0)
+    nenv (0.3.0)
     net-scp (1.2.1)
       net-ssh (>= 2.6.5)
     net-sftp (2.1.2)
@@ -196,7 +196,7 @@ GEM
     net-ssh-gateway (1.2.0)
       net-ssh (>= 2.6.5)
     netrc (0.11.0)
-    newrelic_rpm (3.14.2.312)
+    newrelic_rpm (3.14.3.313)
     nokogiri (1.6.7.2)
       mini_portile2 (~> 2.0.0.rc2)
     nokogumbo (1.4.7)
@@ -205,7 +205,7 @@ GEM
       nenv (~> 0.1)
       shellany (~> 0.0)
     oauth (0.4.7)
-    paperclip (4.3.4)
+    paperclip (4.3.5)
       activemodel (>= 3.2.0)
       activesupport (>= 3.2.0)
       cocaine (~> 0.5.5)
@@ -259,7 +259,7 @@ GEM
       thor (>= 0.18.1, < 2.0)
     rake (10.5.0)
     rb-fsevent (0.9.7)
-    rb-inotify (0.9.6)
+    rb-inotify (0.9.7)
       ffi (>= 0.5.0)
     recaptcha (1.1.0)
       json

app/workers/parsing.rb

@@ -186,7 +186,7 @@ class Parsing
       "MT-T14783C" => "rs28357680"
     }
     rows.map do |row|
-      snp_name, local_genotype = row.split("\t")
+      snp_name, local_genotype = row.strip.split("\t")
       if snp_name.start_with?('MT')
         position = snp_name[/[0-9]+/]
         chromosome = 'MT'

app/workers/preparsing.rb

@@ -44,36 +44,36 @@ class Preparsing
 
     if genotype.filetype == "23andme"
       # first non-comment line is of length 4 after split
-      if l.split("\t").length == 4
+      if l.strip.split("\t").length == 4
         logger.info "file is 23andme and is ok!"
         file_is_ok = true
       end
     elsif genotype.filetype == "ancestry"
       # first line is of length 5
-      if l.split("\t").length == 5
+      if l.strip.split("\t").length == 5
         file_is_ok = true
         logger.info "file is ancestry and is ok!"
       end
     elsif genotype.filetype == "decodeme"
       # first line is of length 6
-      if l.split(",").length == 6
+      if l.strip.split(",").length == 6
         file_is_ok = true
         logger.info "file is decodeme and is ok!"
       end
     elsif genotype.filetype == "ftdna-illumina"
       # first line is of length 4
-      if l.split(",").length == 4
+      if l.strip.split(",").length == 4
         file_is_ok = true
         logger.info "file is ftdna and is ok!"
       end
     elsif genotype.filetype == "23andme-exome-vcf"
-      #first line is 
-      if l.split("\t").length == 10
+      #first line is
+      if l.strip.split("\t").length == 10
         file_is_ok = true
         logger.info "file is 23andme-exome and is ok!"
       end
     elsif genotype.filetype == "IYG"
-      if l.split("\t").length == 2
+      if l.strip.split("\t").length == 2
         file_is_ok = true
         logger.info "file is IYG and is ok!"
       end