features/api/annotation_ids.feature in genomer-0.0.6 vs features/api/annotation_ids.feature in genomer-0.0.7

@@ -5,29 +5,29 @@
 
   @disable-bundler
   Scenario: Adding a prefix to annotation IDs
     Given I run the genomer command with the arguments "init project"
       And I cd to "project"
-      And I append to "Gemfile" with:
+      And I overwrite "Gemfile" with:
         """
         gem 'genomer',               :path => '../../../'
         gem 'genomer-plugin-simple', :path => '../../../genomer-plugin-simple'
         """
-      And I append to "assembly/scaffold.yml" with:
+      And I overwrite "assembly/scaffold.yml" with:
         """
         ---
         -
           sequence:
             source: contig1
 
         """
-      And I append to "assembly/sequence.fna" with:
+      And I overwrite "assembly/sequence.fna" with:
         """
         >contig1
         ATGCATGC
         """
-      And I append to "assembly/annotations.gff" with:
+      And I overwrite "assembly/annotations.gff" with:
         """
         ##gff-version 3
         contig1	.	gene	1	4	.	+	1	ID=gene1
         contig1	.	gene	5	8	.	+	1	ID=gene2
         """
@@ -42,29 +42,29 @@
 
   @disable-bundler
   Scenario: Reset locus tag numbering from the sequence start
     Given I run the genomer command with the arguments "init project"
       And I cd to "project"
-      And I append to "Gemfile" with:
+      And I overwrite "Gemfile" with:
         """
         gem 'genomer',               :path => '../../../'
         gem 'genomer-plugin-simple', :path => '../../../genomer-plugin-simple'
         """
-      And I append to "assembly/scaffold.yml" with:
+      And I overwrite "assembly/scaffold.yml" with:
         """
         ---
         -
           sequence:
             source: contig1
 
         """
-      And I append to "assembly/sequence.fna" with:
+      And I overwrite "assembly/sequence.fna" with:
         """
         >contig1
         ATGCATGC
         """
-      And I append to "assembly/annotations.gff" with:
+      And I overwrite "assembly/annotations.gff" with:
         """
         ##gff-version 3
         contig1	.	gene	1	4	.	+	1	ID=gene1
         contig1	.	gene	5	8	.	+	1	ID=gene2
         """
@@ -79,29 +79,29 @@
 
   @disable-bundler
   Scenario: Reset locus tag numbering with at a specific value
     Given I run the genomer command with the arguments "init project"
       And I cd to "project"
-      And I append to "Gemfile" with:
+      And I overwrite "Gemfile" with:
         """
         gem 'genomer',               :path => '../../../'
         gem 'genomer-plugin-simple', :path => '../../../genomer-plugin-simple'
         """
-      And I append to "assembly/scaffold.yml" with:
+      And I overwrite "assembly/scaffold.yml" with:
         """
         ---
         -
           sequence:
             source: contig1
 
         """
-      And I append to "assembly/sequence.fna" with:
+      And I overwrite "assembly/sequence.fna" with:
         """
         >contig1
         ATGCATGC
         """
-      And I append to "assembly/annotations.gff" with:
+      And I overwrite "assembly/annotations.gff" with:
         """
         ##gff-version 3
         contig1	.	gene	1	4	.	+	1	ID=gene1
         contig1	.	gene	5	8	.	+	1	ID=gene2
         """
@@ -116,28 +116,28 @@
 
   @disable-bundler
   Scenario: Reseting locus tag numbering and adding a prefix
     Given I run the genomer command with the arguments "init project"
       And I cd to "project"
-      And I append to "Gemfile" with:
+      And I overwrite "Gemfile" with:
         """
         gem 'genomer',               :path => '../../../'
         gem 'genomer-plugin-simple', :path => '../../../genomer-plugin-simple'
         """
-      And I append to "assembly/scaffold.yml" with:
+      And I overwrite "assembly/scaffold.yml" with:
         """
         ---
         -
           sequence:
             source: contig1
 
         """
-      And I append to "assembly/sequence.fna" with:
+      And I overwrite "assembly/sequence.fna" with:
         """
         >contig1
         ATGCATGC
         """
-      And I append to "assembly/annotations.gff" with:
+      And I overwrite "assembly/annotations.gff" with:
         """
         ##gff-version 3
         contig1	.	gene	1	4	.	+	1	ID=gene1
         contig1	.	gene	5	8	.	+	1	ID=gene2
         """