[ http://jira.jboss.com/jira/browse/DNA-105?page=comments#action_12415658 ] Randall Hauch commented on DNA-105: ----------------------------------- Wouldn't it be just as useful to sequence all of the content, and allow the user of the resulting information decide whether only the first line is used? One benefit is that a CSV importer in Tool X might be able to show the user some of the data, helping the user know whether particular columns are of interest. -- This message is automatically generated by JIRA. - If you think it was sent incorrectly contact one of the administrators: http://jira.jboss.com/jira/secure/Administrators.jspa - For more information on JIRA, see: http://www.atlassian.com/software/jira

[ http://jira.jboss.com/jira/browse/DNA-105?page=all ] Randall Hauch updated DNA-105: ------------------------------ Summary: Sequence content from delimited text files (was: Sequence metadata from delimited text files) Updated the title to reflect the desired functionality, per agreement by Greg. -- This message is automatically generated by JIRA. - If you think it was sent incorrectly contact one of the administrators: http://jira.jboss.com/jira/secure/Administrators.jspa - For more information on JIRA, see: http://www.atlassian.com/software/jira

[ https://jira.jboss.org/jira/browse/DNA-105?page=com.atlassian.jira.plugin... ] Brian Carothers updated DNA-105: -------------------------------- Attachment: DNA-105_preview.patch Attached patch that adds a new project with two new sequencers, one for parsing sequencing files and one for sequencing fixed width files. Both sequencers are row-based and assume that the file is allocated at one row per line with the EOL character being recognizable by BufferedReader.readLine(). Both sequencers support basic functionality like being able to specify a comment character and custom factory for creating the record associated with each row. The DelimitedTextSequencer allows users to specify a particular regular expression that is used to split each line into columns. This value defaults to ",", presumably allowing this solution to address DNA-229 as well. Since any valid regular expression can be used, this also allows for the use of multiple delimiters. The FixedWidthTextSequencer allows users to specify the column index at which each column starts either as an array of ints or as a single, comma-delimited string. As an example, a user could specify { 3, 6 } as this index to sequence this line: onetwothree into this array of columns: one, two, three The attached patch is about as undocumented as possible, but it's exceedingly straightforward. In fact, there's only about 100 lines of actual code. The rest is just test cases and test data. I'm going to leave this out for a day or two in case anyone has comments. If no major concerns are expressed, I'm going to add documentation, commit this, and then treat any future bugs or feature requests as separate issues. -- This message is automatically generated by JIRA. - If you think it was sent incorrectly contact one of the administrators: https://jira.jboss.org/jira/secure/Administrators.jspa - For more information on JIRA, see: http://www.atlassian.com/software/jira

[ https://jira.jboss.org/jira/browse/DNA-105?page=com.atlassian.jira.plugin... ] Brian Carothers updated DNA-105: -------------------------------- Attachment: DNA-105_final.patch Attached more refined version of the previous patch. This version includes documentation (incl. the obligatory Reference Guide chapter), integration with the gettingstarted sequencers example, and a maximumLinesToRead property that allows the sequencers to be configured to not sequencer an entire file. The patch also modifes StreamSequencerAdapter.setConfiguration to allow for properties to be set on StreamSequencers through DnaConfiguration. -- This message is automatically generated by JIRA. - If you think it was sent incorrectly contact one of the administrators: https://jira.jboss.org/jira/secure/Administrators.jspa - For more information on JIRA, see: http://www.atlassian.com/software/jira