INFO	2018-11-08 15:08:58	FastqToSam	

********** NOTE: Picard's command line syntax is changing.
**********
********** For more information, please see:
********** https://github.com/broadinstitute/picard/wiki/Command-Line-Syntax-Transition-For-Users-(Pre-Transition)
**********
********** The command line looks like this in the new syntax:
**********
**********    FastqToSam -F1 reads/SRR1972919_1.fastq -F2 reads/SRR1972919_1.fastq -O bam/SRR1972919.bam -RG GROUP-SRR1972919 -LB LIB-SRR1972919 -SM SAMPLE_SRR1972919 -QUIET true
**********


INFO	2018-11-08 15:08:58	FastqToSam	

********** NOTE: Picard's command line syntax is changing.
**********
********** For more information, please see:
********** https://github.com/broadinstitute/picard/wiki/Command-Line-Syntax-Transition-For-Users-(Pre-Transition)
**********
********** The command line looks like this in the new syntax:
**********
**********    FastqToSam -F1 reads/SRR1972917_1.fastq -F2 reads/SRR1972917_1.fastq -O bam/SRR1972917.bam -RG GROUP-SRR1972917 -LB LIB-SRR1972917 -SM SAMPLE_SRR1972917 -QUIET true
**********


INFO	2018-11-08 15:08:58	FastqToSam	

********** NOTE: Picard's command line syntax is changing.
**********
********** For more information, please see:
********** https://github.com/broadinstitute/picard/wiki/Command-Line-Syntax-Transition-For-Users-(Pre-Transition)
**********
********** The command line looks like this in the new syntax:
**********
**********    FastqToSam -F1 reads/SRR1972918_1.fastq -F2 reads/SRR1972918_1.fastq -O bam/SRR1972918.bam -RG GROUP-SRR1972918 -LB LIB-SRR1972918 -SM SAMPLE_SRR1972918 -QUIET true
**********


INFO	2018-11-08 15:08:58	FastqToSam	

********** NOTE: Picard's command line syntax is changing.
**********
********** For more information, please see:
********** https://github.com/broadinstitute/picard/wiki/Command-Line-Syntax-Transition-For-Users-(Pre-Transition)
**********
********** The command line looks like this in the new syntax:
**********
**********    FastqToSam -F1 reads/SRR1972921_1.fastq -F2 reads/SRR1972921_1.fastq -O bam/SRR1972921.bam -RG GROUP-SRR1972921 -LB LIB-SRR1972921 -SM SAMPLE_SRR1972921 -QUIET true
**********


INFO	2018-11-08 15:08:58	FastqToSam	

********** NOTE: Picard's command line syntax is changing.
**********
********** For more information, please see:
********** https://github.com/broadinstitute/picard/wiki/Command-Line-Syntax-Transition-For-Users-(Pre-Transition)
**********
********** The command line looks like this in the new syntax:
**********
**********    FastqToSam -F1 reads/SRR1972920_1.fastq -F2 reads/SRR1972920_1.fastq -O bam/SRR1972920.bam -RG GROUP-SRR1972920 -LB LIB-SRR1972920 -SM SAMPLE_SRR1972920 -QUIET true
**********


15:08:58.405 INFO  NativeLibraryLoader - Loading libgkl_compression.so from jar:file:/home/www/miniconda3/envs/engine/share/picard-2.18.14-0/picard.jar!/com/intel/gkl/native/libgkl_compression.so
15:08:58.426 INFO  NativeLibraryLoader - Loading libgkl_compression.so from jar:file:/home/www/miniconda3/envs/engine/share/picard-2.18.14-0/picard.jar!/com/intel/gkl/native/libgkl_compression.so
15:08:58.450 INFO  NativeLibraryLoader - Loading libgkl_compression.so from jar:file:/home/www/miniconda3/envs/engine/share/picard-2.18.14-0/picard.jar!/com/intel/gkl/native/libgkl_compression.so
15:08:58.480 INFO  NativeLibraryLoader - Loading libgkl_compression.so from jar:file:/home/www/miniconda3/envs/engine/share/picard-2.18.14-0/picard.jar!/com/intel/gkl/native/libgkl_compression.so
INFO	2018-11-08 15:08:58	FastqToSam	Auto-detected quality format as: Standard.
15:08:58.529 INFO  NativeLibraryLoader - Loading libgkl_compression.so from jar:file:/home/www/miniconda3/envs/engine/share/picard-2.18.14-0/picard.jar!/com/intel/gkl/native/libgkl_compression.so
INFO	2018-11-08 15:08:58	FastqToSam	Auto-detected quality format as: Standard.
INFO	2018-11-08 15:08:58	FastqToSam	Auto-detected quality format as: Standard.
INFO	2018-11-08 15:08:58	FastqToSam	Auto-detected quality format as: Standard.
INFO	2018-11-08 15:08:58	FastqToSam	Processed 1000 fastq reads
INFO	2018-11-08 15:08:58	FastqToSam	Processed 1000 fastq reads
INFO	2018-11-08 15:08:58	FastqToSam	Processed 1000 fastq reads
INFO	2018-11-08 15:08:58	FastqToSam	Processed 1000 fastq reads
INFO	2018-11-08 15:08:58	FastqToSam	Auto-detected quality format as: Standard.
INFO	2018-11-08 15:08:58	FastqToSam	Processed 1000 fastq reads