MonetDB: bamloader - Finished BAM loader code, added BAM recipe.

Robin Cijvat Thu, 20 Mar 2014 03:50:18 -0700

Changeset: c303c0dd237e for MonetDB
URL: http://dev.monetdb.org/hg/MonetDB?cmd=changeset;node=c303c0dd237e
Added Files:
        sql/backends/monet5/bamloader/BAMRecipe.pdf
        sql/backends/monet5/bamloader/Tests/All
        sql/backends/monet5/bamloader/Tests/bam/queryname/toy.bam
        sql/backends/monet5/bamloader/Tests/bam/toy.bam
        sql/backends/monet5/bamloader/Tests/bam/toy_coordinate.bam
        sql/backends/monet5/bamloader/Tests/bam/toy_coordinate.bam.bai
        sql/backends/monet5/bamloader/Tests/benchmarks.py
        sql/backends/monet5/bamloader/Tests/load.sql.src
        sql/backends/monet5/bamloader/Tests/sort.cmd.src
Removed Files:
        sql/backends/monet5/bamloader/README
        
sql/backends/monet5/bamloader/Tests/benchmarks_0_minimaloutput/benchmark1.sql
        
sql/backends/monet5/bamloader/Tests/benchmarks_0_minimaloutput/benchmark2.sql
        
sql/backends/monet5/bamloader/Tests/benchmarks_0_minimaloutput/query1.1.sql
        
sql/backends/monet5/bamloader/Tests/benchmarks_0_minimaloutput/query1.2.sql
        
sql/backends/monet5/bamloader/Tests/benchmarks_0_minimaloutput/query1.3.sql
        
sql/backends/monet5/bamloader/Tests/benchmarks_0_minimaloutput/query1.4.sql
        
sql/backends/monet5/bamloader/Tests/benchmarks_0_minimaloutput/query1.5.sql
        
sql/backends/monet5/bamloader/Tests/benchmarks_0_minimaloutput/query2.10.sql
        
sql/backends/monet5/bamloader/Tests/benchmarks_0_minimaloutput/query2.11.sql
        
sql/backends/monet5/bamloader/Tests/benchmarks_0_minimaloutput/query2.12.sql
        
sql/backends/monet5/bamloader/Tests/benchmarks_0_minimaloutput/query2.3.sql
        
sql/backends/monet5/bamloader/Tests/benchmarks_0_minimaloutput/query2.4.sql
        
sql/backends/monet5/bamloader/Tests/benchmarks_0_minimaloutput/query2.6.sql
        
sql/backends/monet5/bamloader/Tests/benchmarks_0_minimaloutput/query2.7.sql
        
sql/backends/monet5/bamloader/Tests/benchmarks_0_minimaloutput/query2.8.sql
        
sql/backends/monet5/bamloader/Tests/benchmarks_0_minimaloutput/query2.9.sql
        
sql/backends/monet5/bamloader/Tests/benchmarks_1_minimaloutput/benchmark1.sql
        
sql/backends/monet5/bamloader/Tests/benchmarks_1_minimaloutput/benchmark2.sql
        
sql/backends/monet5/bamloader/Tests/benchmarks_1_minimaloutput/query1.1.sql
        
sql/backends/monet5/bamloader/Tests/benchmarks_1_minimaloutput/query1.2.sql
        
sql/backends/monet5/bamloader/Tests/benchmarks_1_minimaloutput/query1.3.sql
        
sql/backends/monet5/bamloader/Tests/benchmarks_1_minimaloutput/query1.4.sql
        
sql/backends/monet5/bamloader/Tests/benchmarks_1_minimaloutput/query1.5.sql
        
sql/backends/monet5/bamloader/Tests/benchmarks_1_minimaloutput/query2.10.sql
        
sql/backends/monet5/bamloader/Tests/benchmarks_1_minimaloutput/query2.11.sql
        
sql/backends/monet5/bamloader/Tests/benchmarks_1_minimaloutput/query2.12.sql
        
sql/backends/monet5/bamloader/Tests/benchmarks_1_minimaloutput/query2.3.sql
        
sql/backends/monet5/bamloader/Tests/benchmarks_1_minimaloutput/query2.4.sql
        
sql/backends/monet5/bamloader/Tests/benchmarks_1_minimaloutput/query2.6.sql
        
sql/backends/monet5/bamloader/Tests/benchmarks_1_minimaloutput/query2.7.sql
        
sql/backends/monet5/bamloader/Tests/benchmarks_1_minimaloutput/query2.8.sql
        
sql/backends/monet5/bamloader/Tests/benchmarks_1_minimaloutput/query2.9.sql
        sql/backends/monet5/bamloader/Tests/benchmarks_2/benchmark1.sql
        sql/backends/monet5/bamloader/Tests/benchmarks_2/benchmark2.sql
        sql/backends/monet5/bamloader/Tests/benchmarks_2/query1.1.sql
        sql/backends/monet5/bamloader/Tests/benchmarks_2/query1.2.sql
        sql/backends/monet5/bamloader/Tests/benchmarks_2/query1.3.sql
        sql/backends/monet5/bamloader/Tests/benchmarks_2/query1.4.sql
        sql/backends/monet5/bamloader/Tests/benchmarks_2/query1.5.sql
        sql/backends/monet5/bamloader/Tests/benchmarks_2/query2.1.sql
        sql/backends/monet5/bamloader/Tests/benchmarks_2/query2.10.sql
        sql/backends/monet5/bamloader/Tests/benchmarks_2/query2.11.sql
        sql/backends/monet5/bamloader/Tests/benchmarks_2/query2.12.sql
        sql/backends/monet5/bamloader/Tests/benchmarks_2/query2.2.sql
        sql/backends/monet5/bamloader/Tests/benchmarks_2/query2.3.sql
        sql/backends/monet5/bamloader/Tests/benchmarks_2/query2.4.sql
        sql/backends/monet5/bamloader/Tests/benchmarks_2/query2.5.sql
        sql/backends/monet5/bamloader/Tests/benchmarks_2/query2.6.sql
        sql/backends/monet5/bamloader/Tests/benchmarks_2/query2.7.sql
        sql/backends/monet5/bamloader/Tests/benchmarks_2/query2.8.sql
        sql/backends/monet5/bamloader/Tests/benchmarks_2/query2.9.sql
        
sql/backends/monet5/bamloader/Tests/benchmarks_2_minimaloutput/benchmark1.sql
        
sql/backends/monet5/bamloader/Tests/benchmarks_2_minimaloutput/benchmark2.sql
        
sql/backends/monet5/bamloader/Tests/benchmarks_2_minimaloutput/query1.1.sql
        
sql/backends/monet5/bamloader/Tests/benchmarks_2_minimaloutput/query1.2.sql
        
sql/backends/monet5/bamloader/Tests/benchmarks_2_minimaloutput/query1.3.sql
        
sql/backends/monet5/bamloader/Tests/benchmarks_2_minimaloutput/query1.4.sql
        
sql/backends/monet5/bamloader/Tests/benchmarks_2_minimaloutput/query1.5.sql
        
sql/backends/monet5/bamloader/Tests/benchmarks_2_minimaloutput/query2.10.sql
        
sql/backends/monet5/bamloader/Tests/benchmarks_2_minimaloutput/query2.11.sql
        
sql/backends/monet5/bamloader/Tests/benchmarks_2_minimaloutput/query2.12.sql
        
sql/backends/monet5/bamloader/Tests/benchmarks_2_minimaloutput/query2.3.sql
        
sql/backends/monet5/bamloader/Tests/benchmarks_2_minimaloutput/query2.4.sql
        
sql/backends/monet5/bamloader/Tests/benchmarks_2_minimaloutput/query2.6.sql
        
sql/backends/monet5/bamloader/Tests/benchmarks_2_minimaloutput/query2.7.sql
        
sql/backends/monet5/bamloader/Tests/benchmarks_2_minimaloutput/query2.8.sql
        
sql/backends/monet5/bamloader/Tests/benchmarks_2_minimaloutput/query2.9.sql
Modified Files:
        sql/backends/monet5/bamloader/bam_db_interface.c
        sql/backends/monet5/bamloader/bam_db_interface.h
        sql/backends/monet5/bamloader/bam_globals.h
        sql/backends/monet5/bamloader/bam_lib.c
        sql/backends/monet5/bamloader/bam_lib.h
        sql/backends/monet5/bamloader/bam_loader.c
        sql/backends/monet5/bamloader/bam_loader.h
        sql/backends/monet5/bamloader/bam_wrapper.c
        sql/backends/monet5/bamloader/bam_wrapper.h
Branch: bamloader
Log Message:


Finished BAM loader code, added BAM recipe.


diffs (truncated from 9315 to 300 lines):

diff --git a/sql/backends/monet5/bamloader/BAMRecipe.pdf 
b/sql/backends/monet5/bamloader/BAMRecipe.pdf
new file mode 100644
index 
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MonetDB: bamloader - Finished BAM loader code, added BAM recipe.

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