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  1. Bug Repository
  2. BUG-315

error loading gzip file

          Details

          • Type: Bug
          • Status: Closed (View Workflow)
          • Priority: Minor
          • Resolution: Fixed
          • Labels:
            None

            Description

            I get:

            WARNING: BGZF file has invalid uncompressedLength: -1051580223
            java.lang.RuntimeException: BGZF file has invalid uncompressedLength: -1051580223

            when I try to load the chp sample files in genometryImpl/test/data.
            They are gzipped, and the gzip utility was able to unzip them, so the files seem to be valid.

            There is code that determines if the gzip is regular or blocked, I don't know
            if that is the problem.

              Attachments

                Issue Links

                relates to

                Task - A task that needs to be done. BUG-622 File format issues

                • Blocker - Blocks development and/or testing work, production could not run.
                • Closed

                  Activity

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                  lfrohman Lance Frohman (Inactive) created issue -
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                  lfrohman Lance Frohman (Inactive) added a comment -

                  passed

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                  lfrohman Lance Frohman (Inactive) added a comment - passed
                  lfrohman Lance Frohman (Inactive) made changes -
                  Field Original Value New Value
                  Assignee Lance Frohman [ lfrohman ] Alyssa Gulledge [ alyssa ]
                  alyssa Alyssa Gulledge (Inactive) made changes -
                  Status Open [ 1 ] Resolved [ 5 ]
                  Assignee Alyssa Gulledge [ alyssa ]
                  Resolution Fixed [ 1 ]
                  alyssa Alyssa Gulledge (Inactive) made changes -
                  Status Resolved [ 5 ] Closed [ 6 ]
                  alyssa Alyssa Gulledge (Inactive) made changes -
                  Project IGB 6.7 [ 10040 ] Bug Repository [ 10030 ]
                  Key IGBB-216 BUG-315
                  fwang4 Fuquan Wang (Inactive) made changes -
                  Resolution Fixed [ 1 ]
                  Status Closed [ 6 ] Reopened [ 4 ]
                  Assignee Fuquan Wang [ fwang4 ]
                  fwang4 Fuquan Wang (Inactive) made changes -
                  Comment [ Not tested on 7.0.0 (11920) Mac - 'CHP file is in legacy format, cannot be loaded'. Then 4 or 5 pop-up error message was generated. ]
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                  fwang4 Fuquan Wang (Inactive) added a comment -

                  Passed on 7.0.0 (11997) Mac.

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                  fwang4 Fuquan Wang (Inactive) added a comment - Passed on 7.0.0 (11997) Mac.
                  fwang4 Fuquan Wang (Inactive) made changes -
                  Status Reopened [ 4 ] Resolved [ 5 ]
                  Assignee Fuquan Wang [ fwang4 ]
                  Resolution Fixed [ 1 ]
                  richard Richard Linchangco (Inactive) made changes -
                  Resolution Fixed [ 1 ]
                  Status Resolved [ 5 ] Reopened [ 4 ]
                  alyssa Alyssa Gulledge (Inactive) made changes -
                  Link This issue relates to BUG-622 [ BUG-622 ]
                  alyssa Alyssa Gulledge (Inactive) made changes -
                  Link This issue relates to BUG-623 [ BUG-623 ]
                  richard Richard Linchangco (Inactive) made changes -
                  Link This issue relates to BUG-623 [ BUG-623 ]
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                  richard Richard Linchangco (Inactive) added a comment -

                  Passed V. 13624, Mac, Java 1.06.0_37

                  Tested multiple .gz files with accompanying .tbi files from http://bioviz.org/filerepo/

                  Show
                  richard Richard Linchangco (Inactive) added a comment - Passed V. 13624, Mac, Java 1.06.0_37 Tested multiple .gz files with accompanying .tbi files from http://bioviz.org/filerepo/
                  richard Richard Linchangco (Inactive) made changes -
                  Status Reopened [ 4 ] Resolved [ 5 ]
                  Assignee Alyssa Gulledge [ alyssa ]
                  Resolution Fixed [ 1 ]
                  alyssa Alyssa Gulledge (Inactive) made changes -
                  Resolution Fixed [ 1 ]
                  Status Resolved [ 5 ] Reopened [ 4 ]
                  Assignee Alyssa Gulledge [ alyssa ]
                  richard Richard Linchangco (Inactive) made changes -
                  Status Reopened [ 4 ] Resolved [ 5 ]
                  Assignee Alyssa Gulledge [ alyssa ]
                  Resolution Fixed [ 1 ]
                  alyssa Alyssa Gulledge (Inactive) made changes -
                  Status Resolved [ 5 ] Closed [ 6 ]
                  alyssa Alyssa Gulledge (Inactive) made changes -
                  Resolution Fixed [ 1 ]
                  Status Closed [ 6 ] Reopened [ 4 ]
                  alyssa Alyssa Gulledge (Inactive) made changes -
                  Status Reopened [ 4 ] Closed [ 6 ]
                  Assignee Alyssa Gulledge [ alyssa ]
                  Resolution Fixed [ 1 ]

                    People

                    • Assignee:
                      Unassigned
                      Reporter:
                      lfrohman Lance Frohman (Inactive)
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                      Dates

                      • Created:
                        Updated:
                        Resolved: