BioMicroCenter:DataArchiving

PROTOCOL TO DISTRIBUTE AND ARCHIVE ILLUMINA RUNS FROM BIOMICRO CENTER

1. IF NEEDED, SPLIT BARCODES: cd /mnt/biomicro/biomicro/SL_Code/Solexa_Scripts/ perl SplitBarcodes.pl  s_ <>

wait for the code to finish.

2. RUN TagCount.pl cd /mnt/biomicro/biomicro/SL_Code/Solexa_Scripts/ perl TagCount.pl  /TagCount.xls &

wait for the code to finish.

3. CREATE A RENAMING FILE x      x       x       /mnt/biomicro/biomicro/PHIX_runs/DATE/ x      x       x       /mnt/bmc-pub1/public/Illumina/LAB/DATE/ s_N    DATE_ID_USER_LAB_LN        GENOME    /mnt/bmc-pub1/public/Illumina/LAB/DATE/


 * N = 1-8. If you split barcodes, every barcode should be included.
 * DATE = date run initiated (can be found in the filemaker database)
 * labs with accounts in pub1/pub3 can be written to directly.

example (/mnt/biomicro/biomicro/090828.txt): x      x       x       /mnt/biomicro/biomicro/PHIX_runs/090831/ x      x       x       /mnt/boyerpub2/Illumina/090831/ s_1    090831_V6.5_sharif_Boyer_L1     mm9     /mnt/boyerpub2/Illumina/090831/ s_1AAGGT       090831_V6.5aaggt_sharif_Boyer_L1        mm9     /mnt/boyerpub2/Illumina/090831/ s_1CATGT       090831_V6.5catgt_sharif_Boyer_L1        mm9     /mnt/boyerpub2/Illumina/090831/ s_1GCTGT       090831_V6.5gctgt_sharif_Boyer_L1        mm9     /mnt/boyerpub2/Illumina/090831/ s_1TGAGT       090831_V6.5tgagt_sharif_Boyer_L1        mm9     /mnt/boyerpub2/Illumina/090831/ s_1NM  090831_V6.5nm_sharif_Boyer_L1   mm9     /mnt/boyerpub2/Illumina/090831/ s_2    090831_miPS_sharif_Boyer_L2     mm9     /mnt/boyerpub2/Illumina/090831/ s_2AAGGT       090831_miPSaaggt_sharif_Boyer_L2        mm9     /mnt/boyerpub2/Illumina/090831/ s_2CATGT       090831_miPScatgt_sharif_Boyer_L2        mm9     /mnt/boyerpub2/Illumina/090831/ s_2GCTGT       090831_miPSgctgt_sharif_Boyer_L2        mm9     /mnt/boyerpub2/Illumina/090831/ s_2TGAGT       090831_miPStgagt_sharif_Boyer_L2        mm9     /mnt/boyerpub2/Illumina/090831/ s_2NM  090831_miPSnm_sharif_Boyer_L2   mm9     /mnt/boyerpub2/Illumina/090831/

4. RUN RENAMING/DISTRIBUTION CODE

cd /mnt/biomicro/biomicro/SL_Code/Solexa_Scripts/ perl BMC_Solexa_Storage_v14.pl   0 s|p &


 * use s for single end and p for paired end samples

5. DATA ARCHIVING

cd /mnt/bmc-pub2/current/grunN/0****/DATA/ tar -czf /mnt/bmc-9/?/DATE_FLOWCELLID_FILEMAKERRECORD.tgz Intensities/ &

6. AFTER CONFIRMING DOWNLOAD

cd /mnt/bmc-pub2/current/grunN/ rm -fR * & cd /mnt/bmc-pub1/public/Illumina/LAB/DATE tar -czf DATE.tgz DATE/ &