87f40c4dbf6ae4e07fe0ecd8b4cb75dec6e3c0a5
markd
  Thu Jul 25 20:21:01 2024 -0700
add option to pslMap to output TSVs for mapInfo files rather than autoSql tab format

diff --git src/utils/pslMap/usage.txt src/utils/pslMap/usage.txt
index c1cea4a..c3135ea 100644
--- src/utils/pslMap/usage.txt
+++ src/utils/pslMap/usage.txt
@@ -62,25 +62,26 @@
      o mappingId - chain id, or psl file row
      o mappedQName mappedQStart, mappedQEnd - qName, etc of
        mapped psl
      o mappedTName, mappedTStart, mappedTEnd - tName, etc of
        mapped psl
      o mappedStrand - strand of mapped psl
      o mappedAligned - number of aligned bases that were mapped
      o qStartTrunc - aligned bases at qStart not mapped due to
        mapping psl/chain not covering the entire soruce psl.
        This is from the start of the query in the positive
        direction.
      o qEndTrunc - similary for qEnd
      o mappedPslLine - zero-based line number of the corresponding PSL line number
        in outPsl.
    If the psl count not be mapped, the mapping* and mapped* columns are empty.
+  -tsv - write output of mapInfo as a TSV rather than autoSql format file.
   -mappingPsls=pslFile - write mapping alignments that were used in
    PSL format to this file.  Transformations that were done, such as
    -swapMap, will be reflected in this file.  There will be a one-to-one
    correspondence of rows of this file to rows of the outPsl file.
   -simplifyMappingIds - simplifying mapping ids (inPsl target
    name and mapFile query name) before matching them. This
    first drops everything after the last `-', and then drops
    everything after the last remaining `.'.
   -verbose=n  - verbose output
      2 - show each overlap and the mapping