crb-blast 0.6.4 → 0.6.5

checksums.yaml

@@ -1,7 +1,7 @@
 ---
 SHA1:
-  metadata.gz: 31f0635db80697cd3967e40c6101d3036d444822
-  data.tar.gz: e6fda579218d146723542c9baa86908210591308
+  metadata.gz: c6e549532d5ab7c3e2320affbd7b9db0e01dc741
+  data.tar.gz: 7c2a58f1f51381c673bf8906f6e12739b58a7cab
 SHA512:
-  metadata.gz: 7bdfc592a07e9a688dc65861dfda9c993b3558186d4d59b32a7030ac087dcd9b282246ef616c8f29388ac001851cc4f96f8be29bb77e075aaa9474d1083d0bb6
-  data.tar.gz: eb9a9932a63ebf3e6ffd3b8915db74f76c93c7931001d1912a2a6c0a0a087cb20463aa31ea95e274ad156929aab83a229bdee092690a516686bf4bc055405720
+  metadata.gz: 236fb67036142084a61df53041428fe7e6b96abb3ffcced4ed27f86de32d26f6a68a0165ea2052b26bdc96ed7f882b2e791ee45b228dce01b9f8a33f1b80f322
+  data.tar.gz: 02b62ece6ae514db40cd53a94e369c6653213420ae14a7249bc34dd4e1e92e02767d46cabbc588020969d82927203dd3cb5a2e40af37a2f6029f4eec6940dd21

data/lib/crb-blast/crb-blast.rb

@@ -45,6 +45,8 @@ module CRB_Blast
           end
         end
       end
+      name = "#{File.basename(query)}_#{File.basename(target)}_reciprocals.txt"
+      @reciprocal_hits = File.join(@working_dir, name)
       @makedb_path = which('makeblastdb')
       raise 'makeblastdb was not in the PATH' if @makedb_path.empty?
       @blastn_path = which('blastn')
@@ -347,7 +349,7 @@ module CRB_Blast
     # Load the two BLAST output files and store the hits in a hash
     #
     def load_outputs
-      if File.exist?("#{@working_dir}/reciprocal_hits.txt")
+      if File.exist?(@reciprocal_hits)
         # puts "reciprocal output already exists"
       else
         @query_results = Hash.new
@@ -384,7 +386,7 @@ module CRB_Blast
 
     # fills @reciprocals with strict reciprocal hits from the blast results
     def find_reciprocals
-      if File.exist?("#{@working_dir}/reciprocal_hits.txt")
+      if File.exist?(@reciprocal_hits)
         # puts "reciprocal output already exists"
       else
         @reciprocals = Hash.new
@@ -425,7 +427,7 @@ module CRB_Blast
     # Finds hits that have a lower evalue than this cutoff
     def find_secondaries
 
-      if File.exist?("#{@working_dir}/reciprocal_hits.txt")
+      if File.exist?(@reciprocal_hits)
         # puts "reciprocal output already exists"
       else
         length_hash = Hash.new
@@ -534,7 +536,7 @@ module CRB_Blast
             s << "#{hit}\n"
           end
         end
-        File.open("#{@working_dir}/reciprocal_hits.txt", "w") {|f| f.write s }
+        File.open(@reciprocal_hits, "w") { |f| f.write s }
       end
     end
 

data/lib/crb-blast/version.rb

@@ -3,7 +3,7 @@ module CRB_Blast
   module VERSION
     MAJOR = 0
     MINOR = 6
-    PATCH = 4
+    PATCH = 5
     BUILD = nil
 
     STRING = [MAJOR, MINOR, PATCH, BUILD].compact.join('.')

metadata

@@ -1,7 +1,7 @@
 --- !ruby/object:Gem::Specification
 name: crb-blast
 version: !ruby/object:Gem::Version
-  version: 0.6.4
+  version: 0.6.5
 platform: ruby
 authors:
 - Chris Boursnell