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- /illumina/software/CASAVA-1.8.2/libexec/CASAVA-1.8.2/demultiplexBcls \
- --need-separate-controls --positions-format=.locs --fastq-cluster-count=4000000 --gz-level=1 --mismatches='0' --instrument-name='HWUSI-EAS1579R' --run-number='00002' \
- --basecalls-dir /mnt/storage/DATA/GAIIX/Data/Intensities/BaseCalls \
- --intensities-dir /mnt/storage/DATA/GAIIX/Data/Intensities/BaseCalls/.. \
- --output-dir /mnt/storage/DATA/GAIIX/Data/Assembled \
- --output-format fastq \
- \
- --compression gzip \
- --flow-cell-id FC \
- --unknown-barcode 'NoIndex' \
- --lane 8 \
- --tile 0001 --tile 0002 --tile 0003 --tile 0004 --tile 0005 --tile 0006 --tile 0007 --tile 0008 --tile 0009 --tile 0010 --tile 0011 --tile 0012 --tile 0013 --tile 0014 --tile 0015 --tile 0016 --tile 0017 --tile 0018 --tile 0019 --tile 0020 --tile 0021 --tile 0022 --tile 0023 --tile 0024 --tile 0025 --tile 0026 --tile 0027 --tile 0028 --tile 0029 --tile 0030 --tile 0031 --tile 0032 --tile 0033 --tile 0034 --tile 0035 --tile 0036 --tile 0037 --tile 0038 --tile 0039 --tile 0040 --tile 0041 --tile 0042 --tile 0043 --tile 0044 --tile 0045 --tile 0046 --tile 0047 --tile 0048 --tile 0049 --tile 0050 --tile 0051 --tile 0052 --tile 0053 --tile 0054 --tile 0055 --tile 0056 --tile 0057 --tile 0058 --tile 0059 --tile 0060 --tile 0061 --tile 0062 --tile 0063 --tile 0064 --tile 0065 --tile 0066 --tile 0067 --tile 0068 --tile 0069 --tile 0070 --tile 0071 --tile 0072 --tile 0073 --tile 0074 --tile 0075 --tile 0076 --tile 0077 --tile 0078 --tile 0079 --tile 0080 --tile 0081 --tile 0082 --tile 0083 --tile 0084 --tile 0085 --tile 0086 --tile 0087 --tile 0088 --tile 0089 --tile 0090 --tile 0091 --tile 0092 --tile 0093 --tile 0094 --tile 0095 --tile 0096 --tile 0097 --tile 0098 --tile 0099 --tile 0100 --tile 0101 --tile 0102 --tile 0103 --tile 0104 --tile 0105 --tile 0106 --tile 0107 --tile 0108 --tile 0109 --tile 0110 --tile 0111 --tile 0112 --tile 0113 --tile 0114 --tile 0115 --tile 0116 --tile 0117 --tile 0118 --tile 0119 --tile 0120 \
- \
- --input-read-number 1 \
- --output-read-number 1 \
- --read-cycles "1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30" \
- --adapter '' \
- --output-summary-path Temp/L008_R1_demux_summary.xml \
- --sample PhiX \
- --barcode NoIndex \
- --sample-dir Project_Demo/Sample_PhiX \
- \
- /illumina/software/CASAVA-1.8.2/libexec/CASAVA-1.8.2/demultiplexBcls \
- --need-separate-controls --positions-format=.locs --fastq-cluster-count=4000000 --gz-level=1 --mismatches='0' --instrument-name='HWUSI-EAS1579R' --run-number='00002' \
- --basecalls-dir /mnt/storage/DATA/GAIIX/Data/Intensities/BaseCalls \
- --intensities-dir /mnt/storage/DATA/GAIIX/Data/Intensities/BaseCalls/.. \
- --output-dir /mnt/storage/DATA/GAIIX/Data/Assembled \
- --output-format fastq \
- \
- --compression gzip \
- --flow-cell-id FC \
- --unknown-barcode 'NoIndex' \
- --lane 8 \
- --tile 0001 --tile 0002 --tile 0003 --tile 0004 --tile 0005 --tile 0006 --tile 0007 --tile 0008 --tile 0009 --tile 0010 --tile 0011 --tile 0012 --tile 0013 --tile 0014 --tile 0015 --tile 0016 --tile 0017 --tile 0018 --tile 0019 --tile 0020 --tile 0021 --tile 0022 --tile 0023 --tile 0024 --tile 0025 --tile 0026 --tile 0027 --tile 0028 --tile 0029 --tile 0030 --tile 0031 --tile 0032 --tile 0033 --tile 0034 --tile 0035 --tile 0036 --tile 0037 --tile 0038 --tile 0039 --tile 0040 --tile 0041 --tile 0042 --tile 0043 --tile 0044 --tile 0045 --tile 0046 --tile 0047 --tile 0048 --tile 0049 --tile 0050 --tile 0051 --tile 0052 --tile 0053 --tile 0054 --tile 0055 --tile 0056 --tile 0057 --tile 0058 --tile 0059 --tile 0060 --tile 0061 --tile 0062 --tile 0063 --tile 0064 --tile 0065 --tile 0066 --tile 0067 --tile 0068 --tile 0069 --tile 0070 --tile 0071 --tile 0072 --tile 0073 --tile 0074 --tile 0075 --tile 0076 --tile 0077 --tile 0078 --tile 0079 --tile 0080 --tile 0081 --tile 0082 --tile 0083 --tile 0084 --tile 0085 --tile 0086 --tile 0087 --tile 0088 --tile 0089 --tile 0090 --tile 0091 --tile 0092 --tile 0093 --tile 0094 --tile 0095 --tile 0096 --tile 0097 --tile 0098 --tile 0099 --tile 0100 --tile 0101 --tile 0102 --tile 0103 --tile 0104 --tile 0105 --tile 0106 --tile 0107 --tile 0108 --tile 0109 --tile 0110 --tile 0111 --tile 0112 --tile 0113 --tile 0114 --tile 0115 --tile 0116 --tile 0117 --tile 0118 --tile 0119 --tile 0120 \
- \
- --input-read-number 2 \
- --output-read-number 2 \
- --read-cycles "31 32 33 34 35 36 37 38 39 40 41 42 43 44 45 46 47 48 49 50" \
- --adapter '' \
- --output-summary-path Temp/L008_R2_demux_summary.xml \
- --sample PhiX \
- --barcode NoIndex \
- --sample-dir Project_Demo/Sample_PhiX \
- \
- /illumina/software/CASAVA-1.8.2/libexec/CASAVA-1.8.2/demultiplexBcls \
- --need-separate-controls --positions-format=.locs --fastq-cluster-count=4000000 --gz-level=1 --mismatches='0' --instrument-name='HWUSI-EAS1579R' --run-number='00002' \
- --basecalls-dir /mnt/storage/DATA/GAIIX/Data/Intensities/BaseCalls \
- --intensities-dir /mnt/storage/DATA/GAIIX/Data/Intensities/BaseCalls/.. \
- --output-dir /mnt/storage/DATA/GAIIX/Data/Assembled \
- --output-format fastq \
- \
- --compression gzip \
- --flow-cell-id FC \
- --unknown-barcode 'NoIndex' \
- --lane 6 \
- --tile 0001 --tile 0002 --tile 0003 --tile 0004 --tile 0005 --tile 0006 --tile 0007 --tile 0008 --tile 0009 --tile 0010 --tile 0011 --tile 0012 --tile 0013 --tile 0014 --tile 0015 --tile 0016 --tile 0017 --tile 0018 --tile 0019 --tile 0020 --tile 0021 --tile 0022 --tile 0023 --tile 0024 --tile 0025 --tile 0026 --tile 0027 --tile 0028 --tile 0029 --tile 0030 --tile 0031 --tile 0032 --tile 0033 --tile 0034 --tile 0035 --tile 0036 --tile 0037 --tile 0038 --tile 0039 --tile 0040 --tile 0041 --tile 0042 --tile 0043 --tile 0044 --tile 0045 --tile 0046 --tile 0047 --tile 0048 --tile 0049 --tile 0050 --tile 0051 --tile 0052 --tile 0053 --tile 0054 --tile 0055 --tile 0056 --tile 0057 --tile 0058 --tile 0059 --tile 0060 --tile 0061 --tile 0062 --tile 0063 --tile 0064 --tile 0065 --tile 0066 --tile 0067 --tile 0068 --tile 0069 --tile 0070 --tile 0071 --tile 0072 --tile 0073 --tile 0074 --tile 0075 --tile 0076 --tile 0077 --tile 0078 --tile 0079 --tile 0080 --tile 0081 --tile 0082 --tile 0083 --tile 0084 --tile 0085 --tile 0086 --tile 0087 --tile 0088 --tile 0089 --tile 0090 --tile 0091 --tile 0092 --tile 0093 --tile 0094 --tile 0095 --tile 0096 --tile 0097 --tile 0098 --tile 0099 --tile 0100 --tile 0101 --tile 0102 --tile 0103 --tile 0104 --tile 0105 --tile 0106 --tile 0107 --tile 0108 --tile 0109 --tile 0110 --tile 0111 --tile 0112 --tile 0113 --tile 0114 --tile 0115 --tile 0116 --tile 0117 --tile 0118 --tile 0119 --tile 0120 \
- \
- --input-read-number 1 \
- --output-read-number 1 \
- --read-cycles "1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30" \
- --adapter '' \
- --output-summary-path Temp/L006_R1_demux_summary.xml \
- --sample PhiX \
- --barcode NoIndex \
- --sample-dir Project_Demo/Sample_PhiX \
- \
- /illumina/software/CASAVA-1.8.2/libexec/CASAVA-1.8.2/demultiplexBcls \
- --need-separate-controls --positions-format=.locs --fastq-cluster-count=4000000 --gz-level=1 --mismatches='0' --instrument-name='HWUSI-EAS1579R' --run-number='00002' \
- --basecalls-dir /mnt/storage/DATA/GAIIX/Data/Intensities/BaseCalls \
- --intensities-dir /mnt/storage/DATA/GAIIX/Data/Intensities/BaseCalls/.. \
- --output-dir /mnt/storage/DATA/GAIIX/Data/Assembled \
- --output-format fastq \
- \
- --compression gzip \
- --flow-cell-id FC \
- --unknown-barcode 'NoIndex' \
- --lane 6 \
- --tile 0001 --tile 0002 --tile 0003 --tile 0004 --tile 0005 --tile 0006 --tile 0007 --tile 0008 --tile 0009 --tile 0010 --tile 0011 --tile 0012 --tile 0013 --tile 0014 --tile 0015 --tile 0016 --tile 0017 --tile 0018 --tile 0019 --tile 0020 --tile 0021 --tile 0022 --tile 0023 --tile 0024 --tile 0025 --tile 0026 --tile 0027 --tile 0028 --tile 0029 --tile 0030 --tile 0031 --tile 0032 --tile 0033 --tile 0034 --tile 0035 --tile 0036 --tile 0037 --tile 0038 --tile 0039 --tile 0040 --tile 0041 --tile 0042 --tile 0043 --tile 0044 --tile 0045 --tile 0046 --tile 0047 --tile 0048 --tile 0049 --tile 0050 --tile 0051 --tile 0052 --tile 0053 --tile 0054 --tile 0055 --tile 0056 --tile 0057 --tile 0058 --tile 0059 --tile 0060 --tile 0061 --tile 0062 --tile 0063 --tile 0064 --tile 0065 --tile 0066 --tile 0067 --tile 0068 --tile 0069 --tile 0070 --tile 0071 --tile 0072 --tile 0073 --tile 0074 --tile 0075 --tile 0076 --tile 0077 --tile 0078 --tile 0079 --tile 0080 --tile 0081 --tile 0082 --tile 0083 --tile 0084 --tile 0085 --tile 0086 --tile 0087 --tile 0088 --tile 0089 --tile 0090 --tile 0091 --tile 0092 --tile 0093 --tile 0094 --tile 0095 --tile 0096 --tile 0097 --tile 0098 --tile 0099 --tile 0100 --tile 0101 --tile 0102 --tile 0103 --tile 0104 --tile 0105 --tile 0106 --tile 0107 --tile 0108 --tile 0109 --tile 0110 --tile 0111 --tile 0112 --tile 0113 --tile 0114 --tile 0115 --tile 0116 --tile 0117 --tile 0118 --tile 0119 --tile 0120 \
- \
- --input-read-number 2 \
- --output-read-number 2 \
- --read-cycles "31 32 33 34 35 36 37 38 39 40 41 42 43 44 45 46 47 48 49 50" \
- --adapter '' \
- --output-summary-path Temp/L006_R2_demux_summary.xml \
- --sample PhiX \
- --barcode NoIndex \
- --sample-dir Project_Demo/Sample_PhiX \
- \
- [2012-11-16 14:48:07] [illumina] [Demo/Sample_PhiX/PhiX_NoIndex_L008_R2_001.fastq.gz] make Target: Project_Demo/Sample_PhiX/PhiX_NoIndex_L008_R2_001.fastq.gz
- [2012-11-16 14:48:07] [illumina] [Demo/Sample_PhiX/PhiX_NoIndex_L006_R2_001.fastq.gz] make Target: Project_Demo/Sample_PhiX/PhiX_NoIndex_L006_R2_001.fastq.gz
- [2012-11-16 14:48:07] [illumina] [Demo/Sample_PhiX/PhiX_NoIndex_L008_R2_001.fastq.gz] make Reason: Temp/l8_r2/Project_Demo/Sample_PhiX/.sentinel
- [2012-11-16 14:48:07] [illumina] [Demo/Sample_PhiX/PhiX_NoIndex_L006_R2_001.fastq.gz] make Reason: Temp/l6_r2/Project_Demo/Sample_PhiX/.sentinel
- [2012-11-16 14:48:07] [illumina] [Demo/Sample_PhiX/PhiX_NoIndex_L008_R2_001.fastq.gz] make Prereqs: Temp/l8_r2/Project_Demo/Sample_PhiX/.sentinel
- [2012-11-16 14:48:07] [illumina] [Demo/Sample_PhiX/PhiX_NoIndex_L006_R2_001.fastq.gz] make Prereqs: Temp/l6_r2/Project_Demo/Sample_PhiX/.sentinel
- [2012-11-16 14:48:07] [illumina] [Demo/Sample_PhiX/PhiX_NoIndex_L008_R2_001.fastq.gz] [2012-11-16 14:48:07] [illumina] [Demo/Sample_PhiX/PhiX_NoIndex_L006_R2_001.fastq.gz] make Cmd: /illumina/software/CASAVA-1.8.2/libexec/CASAVA-1.8.2/demultiplexBcls --need-separate-controls --positions-format=.locs --fastq-cluster-count=4000000 --gz-level=1 --mismatches='0' --instrument-name='HWUSI-EAS1579R' --run-number='00002' --basecalls-dir /mnt/storage/DATA/GAIIX/Data/Intensities/BaseCalls --intensities-dir /mnt/storage/DATA/GAIIX/Data/Intensities/BaseCalls/.. --output-dir /mnt/storage/DATA/GAIIX/Data/Assembled --output-format fastq --compression gzip --flow-cell-id FC --unknown-barcode 'NoIndex' --lane 8 --tile 0001 --tile 0002 --tile 0003 --tile 0004 --tile 0005 --tile 0006 --tile 0007 --tile 0008 --tile 0009 --tile 0010 --tile 0011 --tile 0012 --tile 0013 --tile 0014 --tile 0015 --tile 0016 --tile 0017 --tile 0018 --tile 0019 --tile 0020 --tile 0021 --tile 0022 --tile 0023 --tile 0024 --tile 0025 --tile 0026 --tile 0027 --tile 0028 --tile 0029 --tile 0030 --tile 0031 --tile 0032 --tile 0033 --tile 0034 --tile 0035 --tile 0036 --tile 0037 --tile 0038 --tile 0039 --tile 0040 --tile 0041 --tile 0042 --tile 0043 --tile 0044 --tile 0045 --tile 0046 --tile 0047 --tile 0048 --tile 0049 --tile 0050 --tile 0051 --tile 0052 --tile 0053 --tile 0054 --tile 0055 --tile 0056 --tile 0057 --tile 0058 --tile 0059 --tile 0060 --tile 0061 --tile 0062 --tile 0063 --tile 0064 --tile 0065 --tile 0066 --tile 0067 --tile 0068 --tile 0069 --tile 0070 --tile 0071 --tile 0072 --tile 0073 --tile 0074 --tile 0075 --tile 0076 --tile 0077 --tile 0078 --tile 0079 --tile 0080 --tile 0081 --tile 0082 --tile 0083 --tile 0084 --tile 0085 --tile 0086 --tile 0087 --tile 0088 --tile 0089 --tile 0090 --tile 0091 --tile 0092 --tile 0093 --tile 0094 --tile 0095 --tile 0096 --tile 0097 --tile 0098 --tile 0099 --tile 0100 --tile 0101 --tile 0102 --tile 0103 --tile 0104 --tile 0105 --tile 0106 --tile 0107 --tile 0108 --tile 0109 --tile 0110 --tile 0111 --tile 0112 --tile 0113 --tile 0114 --tile 0115 --tile 0116 --tile 0117 --tile 0118 --tile 0119 --tile 0120 --input-read-number 2 --output-read-number 2 --read-cycles "31 32 33 34 35 36 37 38 39 40 41 42 43 44 45 46 47 48 49 50" --adapter '' --output-summary-path Temp/L008_R2_demux_summary.xml --sample PhiX --barcode NoIndex --sample-dir Project_Demo/Sample_PhiX
- make Cmd: /illumina/software/CASAVA-1.8.2/libexec/CASAVA-1.8.2/demultiplexBcls --need-separate-controls --positions-format=.locs --fastq-cluster-count=4000000 --gz-level=1 --mismatches='0' --instrument-name='HWUSI-EAS1579R' --run-number='00002' --basecalls-dir /mnt/storage/DATA/GAIIX/Data/Intensities/BaseCalls --intensities-dir /mnt/storage/DATA/GAIIX/Data/Intensities/BaseCalls/.. --output-dir /mnt/storage/DATA/GAIIX/Data/Assembled --output-format fastq --compression gzip --flow-cell-id FC --unknown-barcode 'NoIndex' --lane 6 --tile 0001 --tile 0002 --tile 0003 --tile 0004 --tile 0005 --tile 0006 --tile 0007 --tile 0008 --tile 0009 --tile 0010 --tile 0011 --tile 0012 --tile 0013 --tile 0014 --tile 0015 --tile 0016 --tile 0017 --tile 0018 --tile 0019 --tile 0020 --tile 0021 --tile 0022 --tile 0023 --tile 0024 --tile 0025 --tile 0026 --tile 0027 --tile 0028 --tile 0029 --tile 0030 --tile 0031 --tile 0032 --tile 0033 --tile 0034 --tile 0035 --tile 0036 --tile 0037 --tile 0038 --tile 0039 --tile 0040 --tile 0041 --tile 0042 --tile 0043 --tile 0044 --tile 0045 --tile 0046 --tile 0047 --tile 0048 --tile 0049 --tile 0050 --tile 0051 --tile 0052 --tile 0053 --tile 0054 --tile 0055 --tile 0056 --tile 0057 --tile 0058 --tile 0059 --tile 0060 --tile 0061 --tile 0062 --tile 0063 --tile 0064 --tile 0065 --tile 0066 --tile 0067 --tile 0068 --tile 0069 --tile 0070 --tile 0071 --tile 0072 --tile 0073 --tile 0074 --tile 0075 --tile 0076 --tile 0077 --tile 0078 --tile 0079 --tile 0080 --tile 0081 --tile 0082 --tile 0083 --tile 0084 --tile 0085 --tile 0086 --tile 0087 --tile 0088 --tile 0089 --tile 0090 --tile 0091 --tile 0092 --tile 0093 --tile 0094 --tile 0095 --tile 0096 --tile 0097 --tile 0098 --tile 0099 --tile 0100 --tile 0101 --tile 0102 --tile 0103 --tile 0104 --tile 0105 --tile 0106 --tile 0107 --tile 0108 --tile 0109 --tile 0110 --tile 0111 --tile 0112 --tile 0113 --tile 0114 --tile 0115 --tile 0116 --tile 0117 --tile 0118 --tile 0119 --tile 0120 --input-read-number 2 --output-read-number 2 --read-cycles "31 32 33 34 35 36 37 38 39 40 41 42 43 44 45 46 47 48 49 50" --adapter '' --output-summary-path Temp/L006_R2_demux_summary.xml --sample PhiX --barcode NoIndex --sample-dir Project_Demo/Sample_PhiX
- [2012-11-16 14:48:07] [illumina] [Demo/Sample_PhiX/PhiX_NoIndex_L008_R1_001.fastq.gz] make Target: Project_Demo/Sample_PhiX/PhiX_NoIndex_L008_R1_001.fastq.gz
- [2012-11-16 14:48:07] [illumina] [Demo/Sample_PhiX/PhiX_NoIndex_L008_R1_001.fastq.gz] make Reason: Temp/l8_r1/Project_Demo/Sample_PhiX/.sentinel
- [2012-11-16 14:48:07] [illumina] [Demo/Sample_PhiX/PhiX_NoIndex_L008_R2_001.fastq.gz] Output Paths:
- [2012-11-16 14:48:07] [illumina] [Demo/Sample_PhiX/PhiX_NoIndex_L008_R1_001.fastq.gz] make Prereqs: Temp/l8_r1/Project_Demo/Sample_PhiX/.sentinel
- [2012-11-16 14:48:07] [illumina] [Demo/Sample_PhiX/PhiX_NoIndex_L008_R2_001.fastq.gz] /mnt/storage/DATA/GAIIX/Data/Assembled/Project_Demo/Sample_PhiX
- [2012-11-16 14:48:07] [illumina] [Demo/Sample_PhiX/PhiX_NoIndex_L008_R2_001.fastq.gz] Barcode Paths:
- [2012-11-16 14:48:07] [illumina] [Demo/Sample_PhiX/PhiX_NoIndex_L006_R1_001.fastq.gz] make Target: Project_Demo/Sample_PhiX/PhiX_NoIndex_L006_R1_001.fastq.gz
- [2012-11-16 14:48:07] [illumina] [Demo/Sample_PhiX/PhiX_NoIndex_L008_R1_001.fastq.gz] [2012-11-16 14:48:07] [illumina] [Demo/Sample_PhiX/PhiX_NoIndex_L006_R1_001.fastq.gz] make Reason: Temp/l6_r1/Project_Demo/Sample_PhiX/.sentinel
- make Cmd: /illumina/software/CASAVA-1.8.2/libexec/CASAVA-1.8.2/demultiplexBcls --need-separate-controls --positions-format=.locs --fastq-cluster-count=4000000 --gz-level=1 --mismatches='0' --instrument-name='HWUSI-EAS1579R' --run-number='00002' --basecalls-dir /mnt/storage/DATA/GAIIX/Data/Intensities/BaseCalls --intensities-dir /mnt/storage/DATA/GAIIX/Data/Intensities/BaseCalls/.. --output-dir /mnt/storage/DATA/GAIIX/Data/Assembled --output-format fastq --compression gzip --flow-cell-id FC --unknown-barcode 'NoIndex' --lane 8 --tile 0001 --tile 0002 --tile 0003 --tile 0004 --tile 0005 --tile 0006 --tile 0007 --tile 0008 --tile 0009 --tile 0010 --tile 0011 --tile 0012 --tile 0013 --tile 0014 --tile 0015 --tile 0016 --tile 0017 --tile 0018 --tile 0019 --tile 0020 --tile 0021 --tile 0022 --tile 0023 --tile 0024 --tile 0025 --tile 0026 --tile 0027 --tile 0028 --tile 0029 --tile 0030 --tile 0031 --tile 0032 --tile 0033 --tile 0034 --tile 0035 --tile 0036 --tile 0037 --tile 0038 --tile 0039 --tile 0040 --tile 0041 --tile 0042 --tile 0043 --tile 0044 --tile 0045 --tile 0046 --tile 0047 --tile 0048 --tile 0049 --tile 0050 --tile 0051 --tile 0052 --tile 0053 --tile 0054 --tile 0055 --tile 0056 --tile 0057 --tile 0058 --tile 0059 --tile 0060 --tile 0061 --tile 0062 --tile 0063 --tile 0064 --tile 0065 --tile 0066 --tile 0067 --tile 0068 --tile 0069 --tile 0070 --tile 0071 --tile 0072 --tile 0073 --tile 0074 --tile 0075 --tile 0076 --tile 0077 --tile 0078 --tile 0079 --tile 0080 --tile 0081 --tile 0082 --tile 0083 --tile 0084 --tile 0085 --tile 0086 --tile 0087 --tile 0088 --tile 0089 --tile 0090 --tile 0091 --tile 0092 --tile 0093 --tile 0094 --tile 0095 --tile 0096 --tile 0097 --tile 0098 --tile 0099 --tile 0100 --tile 0101 --tile 0102 --tile 0103 --tile 0104 --tile 0105 --tile 0106 --tile 0107 --tile 0108 --tile 0109 --tile 0110 --tile 0111 --tile 0112 --tile 0113 --tile 0114 --tile 0115 --tile 0116 --tile 0117 --tile 0118 --tile 0119 --tile 0120 --input-read-number 1 --output-read-number 1 --read-cycles "1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30" --adapter '' --output-summary-path Temp/L008_R1_demux_summary.xml --sample PhiX --barcode NoIndex --sample-dir Project_Demo/Sample_PhiX
- [2012-11-16 14:48:07] [illumina] [Demo/Sample_PhiX/PhiX_NoIndex_L006_R1_001.fastq.gz] make Prereqs: Temp/l6_r1/Project_Demo/Sample_PhiX/.sentinel
- [2012-11-16 14:48:07] [illumina] [Demo/Sample_PhiX/PhiX_NoIndex_L008_R2_001.fastq.gz] ->/mnt/storage/DATA/GAIIX/Data/Assembled/Project_Demo/Sample_PhiX
- [2012-11-16 14:48:07] [illumina] [Demo/Sample_PhiX/PhiX_NoIndex_L006_R1_001.fastq.gz] make Cmd: /illumina/software/CASAVA-1.8.2/libexec/CASAVA-1.8.2/demultiplexBcls --need-separate-controls --positions-format=.locs --fastq-cluster-count=4000000 --gz-level=1 --mismatches='0' --instrument-name='HWUSI-EAS1579R' --run-number='00002' --basecalls-dir /mnt/storage/DATA/GAIIX/Data/Intensities/BaseCalls --intensities-dir /mnt/storage/DATA/GAIIX/Data/Intensities/BaseCalls/.. --output-dir /mnt/storage/DATA/GAIIX/Data/Assembled --output-format fastq --compression gzip --flow-cell-id FC --unknown-barcode 'NoIndex' --lane 6 --tile 0001 --tile 0002 --tile 0003 --tile 0004 --tile 0005 --tile 0006 --tile 0007 --tile 0008 --tile 0009 --tile 0010 --tile 0011 --tile 0012 --tile 0013 --tile 0014 --tile 0015 --tile 0016 --tile 0017 --tile 0018 --tile 0019 --tile 0020 --tile 0021 --tile 0022 --tile 0023 --tile 0024 --tile 0025 --tile 0026 --tile 0027 --tile 0028 --tile 0029 --tile 0030 --tile 0031 --tile 0032 --tile 0033 --tile 0034 --tile 0035 --tile 0036 --tile 0037 --tile 0038 --tile 0039 --tile 0040 --tile 0041 --tile 0042 --tile 0043 --tile 0044 --tile 0045 --tile 0046 --tile 0047 --tile 0048 --tile 0049 --tile 0050 --tile 0051 --tile 0052 --tile 0053 --tile 0054 --tile 0055 --tile 0056 --tile 0057 --tile 0058 --tile 0059 --tile 0060 --tile 0061 --tile 0062 --tile 0063 --tile 0064 --tile 0065 --tile 0066 --tile 0067 --tile 0068 --tile 0069 --tile 0070 --tile 0071 --tile 0072 --tile 0073 --tile 0074 --tile 0075 --tile 0076 --tile 0077 --tile 0078 --tile 0079 --tile 0080 --tile 0081 --tile 0082 --tile 0083 --tile 0084 --tile 0085 --tile 0086 --tile 0087 --tile 0088 --tile 0089 --tile 0090 --tile 0091 --tile 0092 --tile 0093 --tile 0094 --tile 0095 --tile 0096 --tile 0097 --tile 0098 --tile 0099 --tile 0100 --tile 0101 --tile 0102 --tile 0103 --tile 0104 --tile 0105 --tile 0106 --tile 0107 --tile 0108 --tile 0109 --tile 0110 --tile 0111 --tile 0112 --tile 0113 --tile 0114 --tile 0115 --tile 0116 --tile 0117 --tile 0118 --tile 0119 --tile 0120 --input-read-number 1 --output-read-number 1 --read-cycles "1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30" --adapter '' --output-summary-path Temp/L006_R1_demux_summary.xml --sample PhiX --barcode NoIndex --sample-dir Project_Demo/Sample_PhiX
- [2012-11-16 14:48:07] [illumina] [Demo/Sample_PhiX/PhiX_NoIndex_L008_R2_001.fastq.gz]
- [2012-11-16 14:48:07] [illumina] [Demo/Sample_PhiX/PhiX_NoIndex_L008_R2_001.fastq.gz] opening /mnt/storage/DATA/GAIIX/Data/Assembled/Project_Demo/Sample_PhiX/PhiX_NoIndex_L008_R2_001.fastq.tmp.gz
- [2012-11-16 14:48:07] [illumina] [Demo/Sample_PhiX/PhiX_NoIndex_L008_R2_001.fastq.gz] Error: 2012-Nov-16 14:48:07: No such file or directory: /home/milev/CASAVA_v1.8.2/src/c++/lib/alignment/BclReader.cpp(86): Throw in function unsigned int casava::alignment::BclReader::readClusterCount()
- [2012-11-16 14:48:07] [illumina] [Demo/Sample_PhiX/PhiX_NoIndex_L008_R2_001.fastq.gz] Dynamic exception type: boost::exception_detail::clone_impl<casava::common::IoException>
- [2012-11-16 14:48:07] [illumina] [Demo/Sample_PhiX/PhiX_NoIndex_L008_R2_001.fastq.gz] std::exception::what: File /mnt/storage/DATA/GAIIX/Data/Intensities/BaseCalls/L008/C31.1/s_8_1.bcl does not exist
- [2012-11-16 14:48:07] [illumina] [Demo/Sample_PhiX/PhiX_NoIndex_L008_R2_001.fastq.gz] : File /mnt/storage/DATA/GAIIX/Data/Intensities/BaseCalls/L008/C31.1/s_8_1.bcl does not exist
- make: *** [Project_Demo/Sample_PhiX/PhiX_NoIndex_L008_R2_001.fastq.gz] Error 1
- make: *** Waiting for unfinished jobs....
- [2012-11-16 14:48:07] [illumina] [Demo/Sample_PhiX/PhiX_NoIndex_L006_R2_001.fastq.gz] Output Paths:
- [2012-11-16 14:48:07] [illumina] [Demo/Sample_PhiX/PhiX_NoIndex_L006_R2_001.fastq.gz] /mnt/storage/DATA/GAIIX/Data/Assembled/Project_Demo/Sample_PhiX
- [2012-11-16 14:48:07] [illumina] [Demo/Sample_PhiX/PhiX_NoIndex_L006_R1_001.fastq.gz] Output Paths:
- [2012-11-16 14:48:07] [illumina] [Demo/Sample_PhiX/PhiX_NoIndex_L006_R2_001.fastq.gz] Barcode Paths:
- [2012-11-16 14:48:07] [illumina] [Demo/Sample_PhiX/PhiX_NoIndex_L006_R1_001.fastq.gz] /mnt/storage/DATA/GAIIX/Data/Assembled/Project_Demo/Sample_PhiX
- [2012-11-16 14:48:07] [illumina] [Demo/Sample_PhiX/PhiX_NoIndex_L006_R1_001.fastq.gz] Barcode Paths:
- [2012-11-16 14:48:07] [illumina] [Demo/Sample_PhiX/PhiX_NoIndex_L006_R2_001.fastq.gz] ->/mnt/storage/DATA/GAIIX/Data/Assembled/Project_Demo/Sample_PhiX
- [2012-11-16 14:48:07] [illumina] [Demo/Sample_PhiX/PhiX_NoIndex_L006_R1_001.fastq.gz] ->/mnt/storage/DATA/GAIIX/Data/Assembled/Project_Demo/Sample_PhiX
- [2012-11-16 14:48:07] [illumina] [Demo/Sample_PhiX/PhiX_NoIndex_L006_R2_001.fastq.gz]
- [2012-11-16 14:48:07] [illumina] [Demo/Sample_PhiX/PhiX_NoIndex_L006_R1_001.fastq.gz]
- [2012-11-16 14:48:07] [illumina] [Demo/Sample_PhiX/PhiX_NoIndex_L006_R2_001.fastq.gz] opening /mnt/storage/DATA/GAIIX/Data/Assembled/Project_Demo/Sample_PhiX/PhiX_NoIndex_L006_R2_001.fastq.tmp.gz
- [2012-11-16 14:48:07] [illumina] [Demo/Sample_PhiX/PhiX_NoIndex_L006_R1_001.fastq.gz] opening /mnt/storage/DATA/GAIIX/Data/Assembled/Project_Demo/Sample_PhiX/PhiX_NoIndex_L006_R1_001.fastq.tmp.gz
- [2012-11-16 14:48:07] [illumina] [Demo/Sample_PhiX/PhiX_NoIndex_L006_R2_001.fastq.gz] [2012-11-16 14:48:07] [illumina] [Demo/Sample_PhiX/PhiX_NoIndex_L006_R1_001.fastq.gz] Error: 2012-Nov-16 14:48:07: No such file or directory: /home/milev/CASAVA_v1.8.2/src/c++/lib/alignment/BclReader.cpp(86): Throw in function unsigned int casava::alignment::BclReader::readClusterCount()
- Error: 2012-Nov-16 14:48:07: No such file or directory: /home/milev/CASAVA_v1.8.2/src/c++/lib/alignment/BclReader.cpp(86): Throw in function unsigned int casava::alignment::BclReader::readClusterCount()
- [2012-11-16 14:48:07] [illumina] [Demo/Sample_PhiX/PhiX_NoIndex_L008_R1_001.fastq.gz] Output Paths:
- [2012-11-16 14:48:07] [illumina] [Demo/Sample_PhiX/PhiX_NoIndex_L008_R1_001.fastq.gz] /mnt/storage/DATA/GAIIX/Data/Assembled/Project_Demo/Sample_PhiX
- [2012-11-16 14:48:07] [illumina] [Demo/Sample_PhiX/PhiX_NoIndex_L006_R1_001.fastq.gz] Dynamic exception type: boost::exception_detail::clone_impl<casava::common::IoException>
- [2012-11-16 14:48:07] [illumina] [Demo/Sample_PhiX/PhiX_NoIndex_L008_R1_001.fastq.gz] [2012-11-16 14:48:07] [illumina] [Demo/Sample_PhiX/PhiX_NoIndex_L006_R2_001.fastq.gz] Dynamic exception type: boost::exception_detail::clone_impl<casava::common::IoException>
- Barcode Paths:
- [2012-11-16 14:48:07] [illumina] [Demo/Sample_PhiX/PhiX_NoIndex_L006_R1_001.fastq.gz] std::exception::what: File /mnt/storage/DATA/GAIIX/Data/Intensities/BaseCalls/L006/C1.1/s_6_1.bcl does not exist
- [2012-11-16 14:48:07] [illumina] [Demo/Sample_PhiX/PhiX_NoIndex_L006_R2_001.fastq.gz] std::exception::what: File /mnt/storage/DATA/GAIIX/Data/Intensities/BaseCalls/L006/C31.1/s_6_1.bcl does not exist
- [2012-11-16 14:48:07] [illumina] [Demo/Sample_PhiX/PhiX_NoIndex_L006_R2_001.fastq.gz] : File /mnt/storage/DATA/GAIIX/Data/Intensities/BaseCalls/L006/C31.1/s_6_1.bcl does not exist
- [2012-11-16 14:48:07] [illumina] [Demo/Sample_PhiX/PhiX_NoIndex_L008_R1_001.fastq.gz] ->/mnt/storage/DATA/GAIIX/Data/Assembled/Project_Demo/Sample_PhiX
- make: *** [Project_Demo/Sample_PhiX/PhiX_NoIndex_L006_R2_001.fastq.gz] Error 1
- [2012-11-16 14:48:07] [illumina] [Demo/Sample_PhiX/PhiX_NoIndex_L006_R1_001.fastq.gz] : File /mnt/storage/DATA/GAIIX/Data/Intensities/BaseCalls/L006/C1.1/s_6_1.bcl does not exist
- make: *** [Project_Demo/Sample_PhiX/PhiX_NoIndex_L006_R1_001.fastq.gz] Error 1
- [2012-11-16 14:48:07] [illumina] [Demo/Sample_PhiX/PhiX_NoIndex_L008_R1_001.fastq.gz]
- [2012-11-16 14:48:07] [illumina] [Demo/Sample_PhiX/PhiX_NoIndex_L008_R1_001.fastq.gz] opening /mnt/storage/DATA/GAIIX/Data/Assembled/Project_Demo/Sample_PhiX/PhiX_NoIndex_L008_R1_001.fastq.tmp.gz
- [2012-11-16 14:48:07] [illumina] [Demo/Sample_PhiX/PhiX_NoIndex_L008_R1_001.fastq.gz] Error: 2012-Nov-16 14:48:07: No such file or directory: /home/milev/CASAVA_v1.8.2/src/c++/lib/alignment/BclReader.cpp(86): Throw in function unsigned int casava::alignment::BclReader::readClusterCount()
- [2012-11-16 14:48:07] [illumina] [Demo/Sample_PhiX/PhiX_NoIndex_L008_R1_001.fastq.gz] Dynamic exception type: boost::exception_detail::clone_impl<casava::common::IoException>
- [2012-11-16 14:48:07] [illumina] [Demo/Sample_PhiX/PhiX_NoIndex_L008_R1_001.fastq.gz] std::exception::what: File /mnt/storage/DATA/GAIIX/Data/Intensities/BaseCalls/L008/C1.1/s_8_1.bcl does not exist
- [2012-11-16 14:48:07] [illumina] [Demo/Sample_PhiX/PhiX_NoIndex_L008_R1_001.fastq.gz] : File /mnt/storage/DATA/GAIIX/Data/Intensities/BaseCalls/L008/C1.1/s_8_1.bcl does not exist
- make: *** [Project_Demo/Sample_PhiX/PhiX_NoIndex_L008_R1_001.fastq.gz] Error 1
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