Job ID = 6529136 SRX = ERX3548055 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... fastq に変換しました。 bowtie でマッピング中... Time loading reference: 00:00:01 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:28:02 84231220 reads; of these: 84231220 (100.00%) were unpaired; of these: 3045894 (3.62%) aligned 0 times 56378812 (66.93%) aligned exactly 1 time 24806514 (29.45%) aligned >1 times 96.38% overall alignment rate Time searching: 00:28:03 Overall time: 00:28:03 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 1870 sequences. [bam_sort_core] merging from 36 files... [bam_rmdupse_core] 40753947 / 81185326 = 0.5020 in library ' ' BAM に変換しました。 Bed ファイルを作成中... WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 30 Jun 2020 02:13:31: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/ERX3548055/ERX3548055.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/ERX3548055/ERX3548055.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/ERX3548055/ERX3548055.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/ERX3548055/ERX3548055.bam'] # control file = None # effective genome size = 1.20e+08 # band width = 300 # model fold = [5, 50] # qvalue cutoff = 1.00e-05 # Larger dataset will be scaled towards smaller dataset. # Range for calculating regional lambda is: 10000 bps # Broad region calling is off # Paired-End mode is off INFO @ Tue, 30 Jun 2020 02:13:31: #1 read tag files... INFO @ Tue, 30 Jun 2020 02:13:31: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 02:13:37: 1000000 INFO @ Tue, 30 Jun 2020 02:13:43: 2000000 INFO @ Tue, 30 Jun 2020 02:13:49: 3000000 INFO @ Tue, 30 Jun 2020 02:13:55: 4000000 WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 30 Jun 2020 02:14:01: 5000000 INFO @ Tue, 30 Jun 2020 02:14:01: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/ERX3548055/ERX3548055.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/ERX3548055/ERX3548055.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/ERX3548055/ERX3548055.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/ERX3548055/ERX3548055.bam'] # control file = None # effective genome size = 1.20e+08 # band width = 300 # model fold = [5, 50] # qvalue cutoff = 1.00e-10 # Larger dataset will be scaled towards smaller dataset. # Range for calculating regional lambda is: 10000 bps # Broad region calling is off # Paired-End mode is off INFO @ Tue, 30 Jun 2020 02:14:01: #1 read tag files... INFO @ Tue, 30 Jun 2020 02:14:01: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 02:14:08: 6000000 INFO @ Tue, 30 Jun 2020 02:14:08: 1000000 INFO @ Tue, 30 Jun 2020 02:14:14: 7000000 INFO @ Tue, 30 Jun 2020 02:14:14: 2000000 INFO @ Tue, 30 Jun 2020 02:14:21: 8000000 INFO @ Tue, 30 Jun 2020 02:14:21: 3000000 INFO @ Tue, 30 Jun 2020 02:14:27: 9000000 INFO @ Tue, 30 Jun 2020 02:14:27: 4000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 30 Jun 2020 02:14:31: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/ERX3548055/ERX3548055.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/ERX3548055/ERX3548055.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/ERX3548055/ERX3548055.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/ERX3548055/ERX3548055.bam'] # control file = None # effective genome size = 1.20e+08 # band width = 300 # model fold = [5, 50] # qvalue cutoff = 1.00e-20 # Larger dataset will be scaled towards smaller dataset. # Range for calculating regional lambda is: 10000 bps # Broad region calling is off # Paired-End mode is off INFO @ Tue, 30 Jun 2020 02:14:31: #1 read tag files... INFO @ Tue, 30 Jun 2020 02:14:31: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 02:14:33: 10000000 INFO @ Tue, 30 Jun 2020 02:14:34: 5000000 INFO @ Tue, 30 Jun 2020 02:14:38: 1000000 INFO @ Tue, 30 Jun 2020 02:14:40: 11000000 INFO @ Tue, 30 Jun 2020 02:14:40: 6000000 INFO @ Tue, 30 Jun 2020 02:14:45: 2000000 INFO @ Tue, 30 Jun 2020 02:14:47: 12000000 INFO @ Tue, 30 Jun 2020 02:14:47: 7000000 INFO @ Tue, 30 Jun 2020 02:14:52: 3000000 INFO @ Tue, 30 Jun 2020 02:14:53: 13000000 INFO @ Tue, 30 Jun 2020 02:14:53: 8000000 INFO @ Tue, 30 Jun 2020 02:14:58: 4000000 INFO @ Tue, 30 Jun 2020 02:15:00: 14000000 INFO @ Tue, 30 Jun 2020 02:15:00: 9000000 INFO @ Tue, 30 Jun 2020 02:15:05: 5000000 INFO @ Tue, 30 Jun 2020 02:15:06: 15000000 INFO @ Tue, 30 Jun 2020 02:15:06: 10000000 INFO @ Tue, 30 Jun 2020 02:15:11: 6000000 INFO @ Tue, 30 Jun 2020 02:15:13: 16000000 INFO @ Tue, 30 Jun 2020 02:15:13: 11000000 INFO @ Tue, 30 Jun 2020 02:15:18: 7000000 INFO @ Tue, 30 Jun 2020 02:15:19: 17000000 INFO @ Tue, 30 Jun 2020 02:15:19: 12000000 INFO @ Tue, 30 Jun 2020 02:15:25: 8000000 INFO @ Tue, 30 Jun 2020 02:15:26: 18000000 INFO @ Tue, 30 Jun 2020 02:15:26: 13000000 INFO @ Tue, 30 Jun 2020 02:15:31: 9000000 INFO @ Tue, 30 Jun 2020 02:15:32: 19000000 INFO @ Tue, 30 Jun 2020 02:15:32: 14000000 INFO @ Tue, 30 Jun 2020 02:15:38: 10000000 INFO @ Tue, 30 Jun 2020 02:15:38: 20000000 INFO @ Tue, 30 Jun 2020 02:15:39: 15000000 INFO @ Tue, 30 Jun 2020 02:15:44: 11000000 INFO @ Tue, 30 Jun 2020 02:15:44: 21000000 INFO @ Tue, 30 Jun 2020 02:15:45: 16000000 INFO @ Tue, 30 Jun 2020 02:15:51: 22000000 INFO @ Tue, 30 Jun 2020 02:15:51: 12000000 INFO @ Tue, 30 Jun 2020 02:15:51: 17000000 INFO @ Tue, 30 Jun 2020 02:15:57: 23000000 INFO @ Tue, 30 Jun 2020 02:15:57: 13000000 INFO @ Tue, 30 Jun 2020 02:15:58: 18000000 INFO @ Tue, 30 Jun 2020 02:16:03: 24000000 INFO @ Tue, 30 Jun 2020 02:16:04: 14000000 INFO @ Tue, 30 Jun 2020 02:16:04: 19000000 INFO @ Tue, 30 Jun 2020 02:16:10: 25000000 INFO @ Tue, 30 Jun 2020 02:16:10: 15000000 INFO @ Tue, 30 Jun 2020 02:16:10: 20000000 INFO @ Tue, 30 Jun 2020 02:16:16: 26000000 INFO @ Tue, 30 Jun 2020 02:16:16: 16000000 INFO @ Tue, 30 Jun 2020 02:16:17: 21000000 INFO @ Tue, 30 Jun 2020 02:16:22: 27000000 INFO @ Tue, 30 Jun 2020 02:16:23: 17000000 INFO @ Tue, 30 Jun 2020 02:16:23: 22000000 INFO @ Tue, 30 Jun 2020 02:16:28: 28000000 INFO @ Tue, 30 Jun 2020 02:16:29: 23000000 INFO @ Tue, 30 Jun 2020 02:16:29: 18000000 INFO @ Tue, 30 Jun 2020 02:16:34: 29000000 INFO @ Tue, 30 Jun 2020 02:16:36: 24000000 INFO @ Tue, 30 Jun 2020 02:16:36: 19000000 INFO @ Tue, 30 Jun 2020 02:16:41: 30000000 INFO @ Tue, 30 Jun 2020 02:16:42: 25000000 INFO @ Tue, 30 Jun 2020 02:16:42: 20000000 INFO @ Tue, 30 Jun 2020 02:16:47: 31000000 INFO @ Tue, 30 Jun 2020 02:16:48: 26000000 INFO @ Tue, 30 Jun 2020 02:16:49: 21000000 INFO @ Tue, 30 Jun 2020 02:16:54: 32000000 INFO @ Tue, 30 Jun 2020 02:16:55: 27000000 INFO @ Tue, 30 Jun 2020 02:16:55: 22000000 INFO @ Tue, 30 Jun 2020 02:17:00: 33000000 INFO @ Tue, 30 Jun 2020 02:17:01: 28000000 INFO @ Tue, 30 Jun 2020 02:17:02: 23000000 INFO @ Tue, 30 Jun 2020 02:17:07: 34000000 INFO @ Tue, 30 Jun 2020 02:17:07: 29000000 INFO @ Tue, 30 Jun 2020 02:17:08: 24000000 INFO @ Tue, 30 Jun 2020 02:17:14: 30000000 INFO @ Tue, 30 Jun 2020 02:17:14: 35000000 INFO @ Tue, 30 Jun 2020 02:17:15: 25000000 INFO @ Tue, 30 Jun 2020 02:17:20: 31000000 INFO @ Tue, 30 Jun 2020 02:17:20: 36000000 INFO @ Tue, 30 Jun 2020 02:17:21: 26000000 INFO @ Tue, 30 Jun 2020 02:17:26: 32000000 INFO @ Tue, 30 Jun 2020 02:17:27: 37000000 INFO @ Tue, 30 Jun 2020 02:17:28: 27000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 30 Jun 2020 02:17:33: 33000000 INFO @ Tue, 30 Jun 2020 02:17:34: 38000000 INFO @ Tue, 30 Jun 2020 02:17:34: 28000000 INFO @ Tue, 30 Jun 2020 02:17:40: 34000000 INFO @ Tue, 30 Jun 2020 02:17:40: 39000000 INFO @ Tue, 30 Jun 2020 02:17:41: 29000000 INFO @ Tue, 30 Jun 2020 02:17:46: 35000000 INFO @ Tue, 30 Jun 2020 02:17:47: 40000000 INFO @ Tue, 30 Jun 2020 02:17:47: 30000000 INFO @ Tue, 30 Jun 2020 02:17:50: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 02:17:50: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 02:17:50: #1 total tags in treatment: 40431379 INFO @ Tue, 30 Jun 2020 02:17:50: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 02:17:50: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 02:17:51: #1 tags after filtering in treatment: 40431345 INFO @ Tue, 30 Jun 2020 02:17:51: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 02:17:51: #1 finished! INFO @ Tue, 30 Jun 2020 02:17:51: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 02:17:51: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 02:17:52: 36000000 INFO @ Tue, 30 Jun 2020 02:17:54: #2 number of paired peaks: 214 WARNING @ Tue, 30 Jun 2020 02:17:54: Fewer paired peaks (214) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 214 pairs to build model! INFO @ Tue, 30 Jun 2020 02:17:54: start model_add_line... INFO @ Tue, 30 Jun 2020 02:17:54: 31000000 INFO @ Tue, 30 Jun 2020 02:17:54: start X-correlation... INFO @ Tue, 30 Jun 2020 02:17:54: end of X-cor INFO @ Tue, 30 Jun 2020 02:17:54: #2 finished! INFO @ Tue, 30 Jun 2020 02:17:54: #2 predicted fragment length is 0 bps INFO @ Tue, 30 Jun 2020 02:17:54: #2 alternative fragment length(s) may be 0,38,110,528,564 bps INFO @ Tue, 30 Jun 2020 02:17:54: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/ERX3548055/ERX3548055.05_model.r WARNING @ Tue, 30 Jun 2020 02:17:54: #2 Since the d (0) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Tue, 30 Jun 2020 02:17:54: #2 You may need to consider one of the other alternative d(s): 0,38,110,528,564 WARNING @ Tue, 30 Jun 2020 02:17:54: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Tue, 30 Jun 2020 02:17:54: #3 Call peaks... INFO @ Tue, 30 Jun 2020 02:17:54: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 30 Jun 2020 02:17:59: 37000000 INFO @ Tue, 30 Jun 2020 02:18:00: 32000000 INFO @ Tue, 30 Jun 2020 02:18:05: 38000000 INFO @ Tue, 30 Jun 2020 02:18:07: 33000000 INFO @ Tue, 30 Jun 2020 02:18:11: 39000000 INFO @ Tue, 30 Jun 2020 02:18:14: 34000000 INFO @ Tue, 30 Jun 2020 02:18:18: 40000000 INFO @ Tue, 30 Jun 2020 02:18:20: 35000000 INFO @ Tue, 30 Jun 2020 02:18:21: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 02:18:21: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 02:18:21: #1 total tags in treatment: 40431379 INFO @ Tue, 30 Jun 2020 02:18:21: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 02:18:21: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 02:18:22: #1 tags after filtering in treatment: 40431345 INFO @ Tue, 30 Jun 2020 02:18:22: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 02:18:22: #1 finished! INFO @ Tue, 30 Jun 2020 02:18:22: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 02:18:22: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 02:18:25: #2 number of paired peaks: 214 WARNING @ Tue, 30 Jun 2020 02:18:25: Fewer paired peaks (214) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 214 pairs to build model! INFO @ Tue, 30 Jun 2020 02:18:25: start model_add_line... INFO @ Tue, 30 Jun 2020 02:18:25: start X-correlation... INFO @ Tue, 30 Jun 2020 02:18:25: end of X-cor INFO @ Tue, 30 Jun 2020 02:18:25: #2 finished! INFO @ Tue, 30 Jun 2020 02:18:25: #2 predicted fragment length is 0 bps INFO @ Tue, 30 Jun 2020 02:18:25: #2 alternative fragment length(s) may be 0,38,110,528,564 bps INFO @ Tue, 30 Jun 2020 02:18:25: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/ERX3548055/ERX3548055.10_model.r WARNING @ Tue, 30 Jun 2020 02:18:25: #2 Since the d (0) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Tue, 30 Jun 2020 02:18:25: #2 You may need to consider one of the other alternative d(s): 0,38,110,528,564 WARNING @ Tue, 30 Jun 2020 02:18:25: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Tue, 30 Jun 2020 02:18:25: #3 Call peaks... INFO @ Tue, 30 Jun 2020 02:18:25: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 30 Jun 2020 02:18:27: 36000000 INFO @ Tue, 30 Jun 2020 02:18:33: 37000000 INFO @ Tue, 30 Jun 2020 02:18:39: 38000000 INFO @ Tue, 30 Jun 2020 02:18:45: 39000000 BigWig に変換しました。 /var/spool/uge/at157/job_scripts/6529136: line 293: 70594 Terminated MACS $i /var/spool/uge/at157/job_scripts/6529136: line 293: 83150 Terminated MACS $i /var/spool/uge/at157/job_scripts/6529136: line 293: 102614 Terminated MACS $i ls: cannot access ERX3548055.05.bed: No such file or directory mv: cannot stat ‘ERX3548055.05.bed’: No such file or directory mv: cannot stat ‘ERX3548055.05.bb’: No such file or directory ls: cannot access ERX3548055.10.bed: No such file or directory mv: cannot stat ‘ERX3548055.10.bed’: No such file or directory mv: cannot stat ‘ERX3548055.10.bb’: No such file or directory ls: cannot access ERX3548055.20.bed: No such file or directory mv: cannot stat ‘ERX3548055.20.bed’: No such file or directory mv: cannot stat ‘ERX3548055.20.bb’: No such file or directory