time java -jar /data/results/tools/align/jvarkit2021/jvarkit/dist/prettysam.jar --no-unicode -R reference.fasta  GSkP7_A.bam | awk -f /data/images/proton/external/Sketas/run454/extract-insert-with-quals2.awk  > GSkP7_A_v2.fastq


time java -jar /data/results/tools/align/jvarkit2021/jvarkit/dist/prettysam.jar --no-unicode -R reference.fasta GSkP7_A.bam                                                | awk -f /data/images/proton/external/Sketas/run454/extract-insert-with-quals2.awk  > GSkP7_A.fastq
time java -jar /data/results/tools/align/jvarkit2021/jvarkit/dist/prettysam.jar --no-unicode -R reference.fasta GSkP8_b.bam                                                | awk -f /data/images/proton/external/Sketas/run454/extract-insert-with-quals2.awk  > GSkP8_b.fastq
time java -jar /data/results/tools/align/jvarkit2021/jvarkit/dist/prettysam.jar --no-unicode -R reference.fasta IonXpress_009_IMP1_4-5-6-7PeptideLinrary.aligned.bam.bam   | awk -f /data/images/proton/external/Sketas/run454/extract-insert-with-quals2.awk  > IonXpress_009_IMP1_4-5-6-7PeptideLinrary.aligned.bam.fastq
time java -jar /data/results/tools/align/jvarkit2021/jvarkit/dist/prettysam.jar --no-unicode -R reference.fasta IonXpress_011_IMP2_A4VRound4.aligned.bam.bam               | awk -f /data/images/proton/external/Sketas/run454/extract-insert-with-quals2.awk  > IonXpress_011_IMP2_A4VRound4.aligned.bam.fastq
time java -jar /data/results/tools/align/jvarkit2021/jvarkit/dist/prettysam.jar --no-unicode -R reference.fasta IonXpress_015_IMP3_Ab42Round2.aligned.bam.bam | awk -f /data/images/proton/external/Sketas/run454/extract-insert-with-quals2.awk  > IonXpress_015_IMP3_Ab42Round2.aligned.bam.fastq
time java -jar /data/results/tools/align/jvarkit2021/jvarkit/dist/prettysam.jar --no-unicode -R reference.fasta R_2016_01_29_13_01_36_user_IONAS-268-GSR9_GSkP4-5_GKLex1-4_160129.GSkP4-Ab42Lib.IonXpressRNA_015.bam				 | awk -f /data/images/proton/external/Sketas/run454/extract-insert-with-quals2.awk  > R_2016_01_29_13_01_36_user_IONAS-268-GSR9_GSkP4-5_GKLex1-4_160129.GSkP4-Ab42Lib.IonXpressRNA_015.fastq
time java -jar /data/results/tools/align/jvarkit2021/jvarkit/dist/prettysam.jar --no-unicode -R reference.fasta R_2016_01_29_13_01_36_user_IONAS-268-GSR9_GSkP4-5_GKLex1-4_160129.GSkP4-Ab42Lib.IonXpressRNA_016.bam				 | awk -f /data/images/proton/external/Sketas/run454/extract-insert-with-quals2.awk  > R_2016_01_29_13_01_36_user_IONAS-268-GSR9_GSkP4-5_GKLex1-4_160129.GSkP4-Ab42Lib.IonXpressRNA_016.fastq
time java -jar /data/results/tools/align/jvarkit2021/jvarkit/dist/prettysam.jar --no-unicode -R reference.fasta R_2016_04_19_11_40_37_user_IONAS-288-ITlab-PHlab-DrSkretas_160419_ITC109_PHR16-17_GSKP4-5.GSKP4-Ab42.IonXpress_015.fastq.bam	 | awk -f /data/images/proton/external/Sketas/run454/extract-insert-with-quals2.awk  > R_2016_04_19_11_40_37_user_IONAS-288-ITlab-PHlab-DrSkretas_160419_ITC109_PHR16-17_GSKP4-5.GSKP4-Ab42.IonXpress_015.fastq.fastq
time java -jar /data/results/tools/align/jvarkit2021/jvarkit/dist/prettysam.jar --no-unicode -R reference.fasta R_2016_04_19_11_40_37_user_IONAS-288-ITlab-PHlab-DrSkretas_160419_ITC109_PHR16-17_GSKP4-5.GSKP5-SOD.IonXpress_016.fastq.bam    | awk -f /data/images/proton/external/Sketas/run454/extract-insert-with-quals2.awk  > R_2016_04_19_11_40_37_user_IONAS-288-ITlab-PHlab-DrSkretas_160419_ITC109_PHR16-17_GSKP4-5.GSKP5-SOD.IonXpress_016.fastq.fastq