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Transform XML - no output file (1)

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The get_xml_file_from_web service downloads an example xml from myExperiment. The content of that file is then saved to a temporary file by create_and_populate_xml_file. The path to the temporary file is passed to the inFileURL port of Transform_XML. The get_xslt_file_from_web service downloads an example xslt file from myExperiment. The content of that file is then saved to a temporary file by create_and_populate_xslt_file. The path to the temporary file is passed to the xslFileURL port...

Created: 2008-09-27

Credits: Alan Williams

Transcribe DNA (1)

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The Transcribe DNA service takes the DNA sequence, here defaulted to 'gatcctccat' and outputs the corresponding transcribed RNA sequence, in this example, 'gauccuccau'.

Created: 2008-09-27

Credits: Alan Williams

Tell - title and message parameters (1)

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The tell service displays an informative dialog with no title but with message 'Some message'. When the user presses OK the string 'answer' is passed to the answer port of the tell service and so to the output of the workflow.

Created: 2008-09-27

Credits: Alan Williams

String list union - yielding empty list (1)

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The string list union service takes in two empty lists [] and [] and returns an empty list [].

Created: 2008-09-27

Credits: Alan Williams

String list union - yielding non-empty list (1)

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The string list union service takes in ['a','b','c'] and ['a','e','c'] and returns a list equivalent to ['a','b','c','e'].

Created: 2008-09-27

Credits: Alan Williams

String list intersection - yielding empty ... (1)

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The string list intersection service takes in ['a','b','c'] and ['x','y','z'] and returns the empty list [].

Created: 2008-09-27

Credits: Alan Williams

String list intersection - yielding non em... (1)

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The string list intersection service takes in ['a','b','c'] and ['a','e','c] and returns the list ['a','c'].

Created: 2008-09-27

Credits: Alan Williams

String list difference - yielding empty list (1)

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The string list difference service takes in ['a','b','c'] and ['a','c','b'] and returns the empty list [].

Created: 2008-09-27

Credits: Alan Williams

Split string into string list by regular e... (1)

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The split string into string list by regular expression takes the string 'a,b,c' and using the default regular expression ',' splits it into the list ['a','b','c']

Created: 2008-09-27

Credits: Alan Williams

Select - single element list (1)

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The split_string_into_string_list_by_regular_expression parses the string 'a' and outputs the list ['a']. The select service displays a dialog with 'Some title' and 'Some message'. The user is only able to select the value 'a'. When the user presses OK 'a' is passed to the answer port of the select service and so to the output of the workflow. If the user clicks Cancel then a service failure is generated.

Created: 2008-09-27

Credits: Alan Williams

Select - title parameter (1)

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The split_string_into_string_list_by_regular_expression parses the string 'a,b,c,d,e' and outputs the list ['a','b','c','d','e']. The select service displays a dialog with 'Some title' but no message. The user is able to select from the values ['a','b','c','d',e']. When the user presses OK the value the user selected is passed to the answer port of the select service and so to the output of the workflow. If the user clicks Cancel then a service failure is generated.

Created: 2008-09-27

Credits: Alan Williams

Select - no title or message parameters (1)

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The split_string_into_string_list_by_regular_expression parses the string 'a,b,c,d,e' and outputs the list ['a','b','c','d','e']. The select service displays a dialog with no title or message. The user is able to select from the values ['a','b','c','d',e']. When the user presses OK the value the user selected is passed to the answer port of the select service and so to the output of the workflow. If the user clicks Cancel then a service failure is generated.

Created: 2008-09-27

Credits: Alan Williams

Remove duplicate strings - empty list (1)

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The remove duplicate strings service takes the empty list [] and outputs the result [].

Created: 2008-09-27

Credits: Alan Williams

Remove duplicate strings (1)

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The remove duplicate strings service takes the list ['a','b','c','b','a','d'], strips out duplicate strings and outputs the result ['a','b','c','d'].

Created: 2008-09-27

Credits: Alan Williams

Read text file - empty file (1)

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The beanshell creates an empty temporary file. The filepath to the temporary file is then passed to the Read_text_file service which reads the file and outputs the empty string ''.

Created: 2008-09-27

Credits: Alan Williams

Read text file - several lines (1)

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The beanshell write the string 'hello' four times separated by a new lineto a temporary file. The filepath to the temporary file is then passed to the Read_text_file service which reads the file and outputs the string 'hello hello hello hello'.

Created: 2008-09-27

Credits: Alan Williams

Read text file (1)

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The beanshell write the string 'hello' to a temporary file. The filepath to the temporary file is then passed to the Read_text_file service which reads the file and outputs the string 'hello'.

Created: 2008-09-27

Credits: Alan Williams

Read SwissProt file (1)

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The Get_web_page_from_URL downloads a file from myExperiment that contains SwissProt data. That data is then saved to a temporary file generated by the create_and_populate_temporary_file beanshell. The path to the temporary file is then passed to the Read_SwissProt_file service. That service reads the file and converts the SwissProt data into Agave format. The result is then sent to the workflow's out port.

Created: 2008-09-27

Credits: Alan Williams

Pad numeral with leading 0s - default targ... (1)

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The pad numeral with leading 0s takes the input '12' and pads it to the default target length of 7, yielding the output '0000012'.

Created: 2008-09-27

Credits: Alan Williams

Merge string list to string - empty list (1)

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The merge string list to string service takes an empty list [] and outputs an empty string ''.

Created: 2008-09-27

Credits: Alan Williams

Merge string list to string - default sepa... (1)

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The merge string list to string service takes the list ['a','b','c'] and outputs the string 'a b c'.

Created: 2008-09-27

Credits: Alan Williams

List files by regex - empty directory (1)

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The create_temporary_directory beanshell creates a temporary directory and outputs the path to that directory. The empty directory is examined by the List_files_by_regex service. Since there are no files, an empty list is output.

Created: 2008-09-27

Credits: Alan Williams

List files by regex - no answer (1)

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The create_temporary_directory beanshell creates a temporary directory and outputs the path to that directory. The populate_directory beanshell creates several files within the temporary directory. Once the directory has been populated, it is examined by the List_files_by_regex service. Since no files match the regular expression 'x.*' i.e. no files have a name that starts with 'x', an empty list is output.

Created: 2008-09-27

Credits: Alan Williams

List files by regex - several answers (1)

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The create_temporary_directory beanshell creates a temporary directory and outputs the path to that directory. The populate_directory beanshell creates several files within the temporary directory. Once the directory has been populated, it is examined by the List_files_by_regex service and the file paths matching the regular expression '.*i.*', i.e. those containing an 'i', are output.

Created: 2008-09-27

Credits: Alan Williams

List files by extension - empty directory (1)

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The create_temporary_directory beanshell creates a temporary directory and outputs the path to that directory. The empty directory is examined by the List_files_by_extension service. Since no files end in ".png", an empty list is output.

Created: 2008-09-27

Credits: Alan Williams