sushi_fabric 1.2.4 → 1.2.6

checksums.yaml

@@ -1,7 +1,7 @@
 ---
 SHA256:
-  metadata.gz: 28252c62a5ac77892808193b02a694e48bf56c5f28cbe11ad8c26eb3076fd5d4
-  data.tar.gz: 9c15be2d98e78916fac71ebd653761e50b0b0f6ace6698ee15a277d73e28aea8
+  metadata.gz: 54b9737f2ef32b1005cc4aec5a474424d3055f3c3d095b1a3304beafd27d6200
+  data.tar.gz: 3a56fc3324eb3271ddc1dda0660d821f91212537812486754266fe9527da8fad
 SHA512:
-  metadata.gz: 67e11563c751c2c2905f8109046d376c24fd16418707d7e39be79fae7b6c93a01a300cbed6d5fdcf97984af1e613510602a44add4358528affb58fe3b0de0994
-  data.tar.gz: 368bebe991f06642d8202eb7f65a97cb2dd6e762e01c712a1841e16350513dd45b59ef8b822a049163c383f5a00698057740faac540584158b71f97885e9b069
+  metadata.gz: 300528219f4727ef680e12c9c653b30a8f6be17b4a3b0a64b22b54e95112954724f18a88902b18db66cf9503289e399b6a39d53046e8c9dd5edaa668f0ec63af
+  data.tar.gz: 1e6375d4c4778748aa7ed2225476a1bf7135f6226fe9e30e8801916f24bb595dd276d58c5b385a6c34762c23d5afd697486fc39b950919ba1b8524c5844f6f81

data/lib/sushi_fabric/sushiApp.rb

@@ -1,6 +1,6 @@
 #!/usr/bin/env ruby
 # encoding: utf-8
-# Version = '20231208-144616'
+# Version = '20240806-095335'
 
 require 'csv'
 require 'fileutils'
@@ -729,7 +729,11 @@ rm -rf #{@scratch_dir} || exit 1
     end
   end
   def dataset_mode
-    selected_samples = Hash[*@params['samples'].split(',').map{|sample_name| [sample_name, true]}.flatten]
+    selected_samples = unless @params['samples'].empty?
+                         Hash[*@params['samples'].split(',').map{|sample_name| [sample_name, true]}.flatten]
+                       else
+                         Hash[*@dataset_hash.map{|row| row['Name']}.map{|sample_name| [sample_name, true]}.flatten]
+                       end
     # for a case of @dataset is used in def next_datast in SUSHIApp
     @dataset = []
     @dataset_hash.each do |row|
@@ -872,20 +876,6 @@ rm -rf #{@scratch_dir} || exit 1
         @current_user ||= nil
         @next_dataset_id = save_data_set(data_set_arr.to_a.flatten, headers, rows, @current_user, @child)
         save_parameters_in_sushi_db
-
-        unless @off_bfabric_registration
-          if next_dataset = DataSet.find_by_id(@next_dataset_id)
-            next_dataset.register_bfabric(bfabric_application_number: @next_dataset_bfabric_application_number)
-            if next_dataset.workunit_id
-              @job_scripts.each do |job_script|
-                open(job_script, "a") do |out|
-                  out.puts "WORKUNIT_ID=#{next_dataset.workunit_id}"
-                  out.puts "update_resource_size -w $WORKUNIT_ID"
-                end
-              end
-            end
-          end
-        end
       end
     end
     copy_uploaded_files

data/lib/sushi_fabric/version.rb

@@ -1,3 +1,3 @@
 module SushiFabric
-  VERSION = "1.2.4"
+  VERSION = "1.2.6"
 end

metadata

@@ -1,14 +1,14 @@
 --- !ruby/object:Gem::Specification
 name: sushi_fabric
 version: !ruby/object:Gem::Version
-  version: 1.2.4
+  version: 1.2.6
 platform: ruby
 authors:
 - Functional Genomics Center Zurich
-autorequire:
+autorequire: 
 bindir: bin
 cert_chain: []
-date: 2023-12-08 00:00:00.000000000 Z
+date: 2024-08-06 00:00:00.000000000 Z
 dependencies:
 - !ruby/object:Gem::Dependency
   name: bundler
@@ -69,7 +69,7 @@ homepage: ''
 licenses:
 - MIT
 metadata: {}
-post_install_message:
+post_install_message: 
 rdoc_options: []
 require_paths:
 - lib
@@ -84,8 +84,8 @@ required_rubygems_version: !ruby/object:Gem::Requirement
     - !ruby/object:Gem::Version
       version: '0'
 requirements: []
-rubygems_version: 3.3.26
-signing_key:
+rubygems_version: 3.5.5
+signing_key: 
 specification_version: 4
 summary: workflow manager client.
 test_files: