Job ID = 6527528 SRX = SRX1038033 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T12:43:30 prefetch.2.10.7: 1) Downloading 'SRR2039662'... 2020-06-29T12:43:30 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T12:48:15 prefetch.2.10.7: HTTPS download succeed 2020-06-29T12:48:15 prefetch.2.10.7: 1) 'SRR2039662' was downloaded successfully 2020-06-29T12:48:15 prefetch.2.10.7: 'SRR2039662' has 0 unresolved dependencies Read 45479472 spots for SRR2039662/SRR2039662.sra Written 45479472 spots for SRR2039662/SRR2039662.sra fastq に変換しました。 bowtie でマッピング中... Time loading reference: 00:00:00 Time loading forward index: 00:00:01 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:11:09 45479472 reads; of these: 45479472 (100.00%) were unpaired; of these: 9431801 (20.74%) aligned 0 times 29567766 (65.01%) aligned exactly 1 time 6479905 (14.25%) aligned >1 times 79.26% overall alignment rate Time searching: 00:11:10 Overall time: 00:11:10 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 15 sequences. [bam_sort_core] merging from 16 files... [bam_rmdupse_core] 3719141 / 36047671 = 0.1032 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 @ Mon, 29 Jun 2020 22:33:14: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX1038033/SRX1038033.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX1038033/SRX1038033.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX1038033/SRX1038033.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX1038033/SRX1038033.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 @ Mon, 29 Jun 2020 22:33:14: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:33:14: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:33:20: 1000000 INFO @ Mon, 29 Jun 2020 22:33:25: 2000000 INFO @ Mon, 29 Jun 2020 22:33:31: 3000000 INFO @ Mon, 29 Jun 2020 22:33:36: 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 @ Mon, 29 Jun 2020 22:33:42: 5000000 INFO @ Mon, 29 Jun 2020 22:33:44: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX1038033/SRX1038033.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX1038033/SRX1038033.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX1038033/SRX1038033.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX1038033/SRX1038033.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 @ Mon, 29 Jun 2020 22:33:44: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:33:44: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:33:47: 6000000 INFO @ Mon, 29 Jun 2020 22:33:49: 1000000 INFO @ Mon, 29 Jun 2020 22:33:53: 7000000 INFO @ Mon, 29 Jun 2020 22:33:55: 2000000 INFO @ Mon, 29 Jun 2020 22:33:59: 8000000 INFO @ Mon, 29 Jun 2020 22:34:01: 3000000 INFO @ Mon, 29 Jun 2020 22:34:04: 9000000 INFO @ Mon, 29 Jun 2020 22:34:06: 4000000 INFO @ Mon, 29 Jun 2020 22:34:10: 10000000 BedGraph に変換中... INFO @ Mon, 29 Jun 2020 22:34:12: 5000000 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 @ Mon, 29 Jun 2020 22:34:14: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX1038033/SRX1038033.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX1038033/SRX1038033.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX1038033/SRX1038033.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX1038033/SRX1038033.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 @ Mon, 29 Jun 2020 22:34:14: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:34:14: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:34:16: 11000000 INFO @ Mon, 29 Jun 2020 22:34:17: 6000000 INFO @ Mon, 29 Jun 2020 22:34:20: 1000000 INFO @ Mon, 29 Jun 2020 22:34:22: 12000000 INFO @ Mon, 29 Jun 2020 22:34:23: 7000000 INFO @ Mon, 29 Jun 2020 22:34:26: 2000000 INFO @ Mon, 29 Jun 2020 22:34:28: 13000000 INFO @ Mon, 29 Jun 2020 22:34:29: 8000000 INFO @ Mon, 29 Jun 2020 22:34:32: 3000000 INFO @ Mon, 29 Jun 2020 22:34:34: 14000000 INFO @ Mon, 29 Jun 2020 22:34:35: 9000000 INFO @ Mon, 29 Jun 2020 22:34:38: 4000000 INFO @ Mon, 29 Jun 2020 22:34:39: 15000000 INFO @ Mon, 29 Jun 2020 22:34:42: 10000000 INFO @ Mon, 29 Jun 2020 22:34:44: 5000000 INFO @ Mon, 29 Jun 2020 22:34:45: 16000000 INFO @ Mon, 29 Jun 2020 22:34:48: 11000000 INFO @ Mon, 29 Jun 2020 22:34:50: 6000000 INFO @ Mon, 29 Jun 2020 22:34:51: 17000000 INFO @ Mon, 29 Jun 2020 22:34:54: 12000000 INFO @ Mon, 29 Jun 2020 22:34:56: 7000000 INFO @ Mon, 29 Jun 2020 22:34:57: 18000000 INFO @ Mon, 29 Jun 2020 22:35:00: 13000000 INFO @ Mon, 29 Jun 2020 22:35:02: 8000000 INFO @ Mon, 29 Jun 2020 22:35:03: 19000000 INFO @ Mon, 29 Jun 2020 22:35:06: 14000000 INFO @ Mon, 29 Jun 2020 22:35:08: 9000000 INFO @ Mon, 29 Jun 2020 22:35:08: 20000000 INFO @ Mon, 29 Jun 2020 22:35:12: 15000000 INFO @ Mon, 29 Jun 2020 22:35:14: 10000000 INFO @ Mon, 29 Jun 2020 22:35:14: 21000000 INFO @ Mon, 29 Jun 2020 22:35:18: 16000000 INFO @ Mon, 29 Jun 2020 22:35:20: 22000000 INFO @ Mon, 29 Jun 2020 22:35:20: 11000000 INFO @ Mon, 29 Jun 2020 22:35:24: 17000000 INFO @ Mon, 29 Jun 2020 22:35:26: 23000000 INFO @ Mon, 29 Jun 2020 22:35:26: 12000000 INFO @ Mon, 29 Jun 2020 22:35:30: 18000000 INFO @ Mon, 29 Jun 2020 22:35:32: 24000000 INFO @ Mon, 29 Jun 2020 22:35:33: 13000000 INFO @ Mon, 29 Jun 2020 22:35:36: 19000000 INFO @ Mon, 29 Jun 2020 22:35:38: 25000000 INFO @ Mon, 29 Jun 2020 22:35:38: 14000000 INFO @ Mon, 29 Jun 2020 22:35:42: 20000000 INFO @ Mon, 29 Jun 2020 22:35:44: 26000000 INFO @ Mon, 29 Jun 2020 22:35:44: 15000000 INFO @ Mon, 29 Jun 2020 22:35:48: 21000000 INFO @ Mon, 29 Jun 2020 22:35:49: 27000000 INFO @ Mon, 29 Jun 2020 22:35:50: 16000000 INFO @ Mon, 29 Jun 2020 22:35:54: 22000000 INFO @ Mon, 29 Jun 2020 22:35:55: 28000000 INFO @ Mon, 29 Jun 2020 22:35:56: 17000000 INFO @ Mon, 29 Jun 2020 22:36:00: 23000000 INFO @ Mon, 29 Jun 2020 22:36:01: 29000000 INFO @ Mon, 29 Jun 2020 22:36:02: 18000000 INFO @ Mon, 29 Jun 2020 22:36:06: 24000000 INFO @ Mon, 29 Jun 2020 22:36:07: 30000000 INFO @ Mon, 29 Jun 2020 22:36:08: 19000000 INFO @ Mon, 29 Jun 2020 22:36:12: 25000000 INFO @ Mon, 29 Jun 2020 22:36:13: 31000000 INFO @ Mon, 29 Jun 2020 22:36:14: 20000000 INFO @ Mon, 29 Jun 2020 22:36:19: 26000000 INFO @ Mon, 29 Jun 2020 22:36:19: 32000000 INFO @ Mon, 29 Jun 2020 22:36:20: 21000000 INFO @ Mon, 29 Jun 2020 22:36:21: #1 tag size is determined as 48 bps INFO @ Mon, 29 Jun 2020 22:36:21: #1 tag size = 48 INFO @ Mon, 29 Jun 2020 22:36:21: #1 total tags in treatment: 32328530 INFO @ Mon, 29 Jun 2020 22:36:21: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:36:21: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 29 Jun 2020 22:36:21: #1 tags after filtering in treatment: 32328530 INFO @ Mon, 29 Jun 2020 22:36:21: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:36:21: #1 finished! INFO @ Mon, 29 Jun 2020 22:36:21: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:36:21: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:36:24: #2 number of paired peaks: 30 WARNING @ Mon, 29 Jun 2020 22:36:24: Too few paired peaks (30) so I can not build the model! Broader your MFOLD range parameter may erase this error. If it still can't build the model, we suggest to use --nomodel and --extsize 147 or other fixed number instead. WARNING @ Mon, 29 Jun 2020 22:36:24: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX1038033/SRX1038033.05_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1038033/SRX1038033.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1038033/SRX1038033.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1038033/SRX1038033.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:36:25: 27000000 INFO @ Mon, 29 Jun 2020 22:36:26: 22000000 INFO @ Mon, 29 Jun 2020 22:36:31: 28000000 INFO @ Mon, 29 Jun 2020 22:36:32: 23000000 INFO @ Mon, 29 Jun 2020 22:36:37: 29000000 INFO @ Mon, 29 Jun 2020 22:36:38: 24000000 INFO @ Mon, 29 Jun 2020 22:36:42: 30000000 INFO @ Mon, 29 Jun 2020 22:36:43: 25000000 INFO @ Mon, 29 Jun 2020 22:36:48: 31000000 INFO @ Mon, 29 Jun 2020 22:36:49: 26000000 INFO @ Mon, 29 Jun 2020 22:36:54: 32000000 INFO @ Mon, 29 Jun 2020 22:36:55: 27000000 INFO @ Mon, 29 Jun 2020 22:36:57: #1 tag size is determined as 48 bps INFO @ Mon, 29 Jun 2020 22:36:57: #1 tag size = 48 INFO @ Mon, 29 Jun 2020 22:36:57: #1 total tags in treatment: 32328530 INFO @ Mon, 29 Jun 2020 22:36:57: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:36:57: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 29 Jun 2020 22:36:57: #1 tags after filtering in treatment: 32328530 INFO @ Mon, 29 Jun 2020 22:36:57: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:36:57: #1 finished! INFO @ Mon, 29 Jun 2020 22:36:57: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:36:57: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:36:59: #2 number of paired peaks: 30 WARNING @ Mon, 29 Jun 2020 22:36:59: Too few paired peaks (30) so I can not build the model! Broader your MFOLD range parameter may erase this error. If it still can't build the model, we suggest to use --nomodel and --extsize 147 or other fixed number instead. WARNING @ Mon, 29 Jun 2020 22:36:59: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX1038033/SRX1038033.10_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1038033/SRX1038033.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1038033/SRX1038033.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1038033/SRX1038033.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:37:01: 28000000 INFO @ Mon, 29 Jun 2020 22:37:07: 29000000 INFO @ Mon, 29 Jun 2020 22:37:14: 30000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 22:37:20: 31000000 INFO @ Mon, 29 Jun 2020 22:37:27: 32000000 INFO @ Mon, 29 Jun 2020 22:37:29: #1 tag size is determined as 48 bps INFO @ Mon, 29 Jun 2020 22:37:29: #1 tag size = 48 INFO @ Mon, 29 Jun 2020 22:37:29: #1 total tags in treatment: 32328530 INFO @ Mon, 29 Jun 2020 22:37:29: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:37:29: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 29 Jun 2020 22:37:30: #1 tags after filtering in treatment: 32328530 INFO @ Mon, 29 Jun 2020 22:37:30: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:37:30: #1 finished! INFO @ Mon, 29 Jun 2020 22:37:30: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:37:30: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:37:32: #2 number of paired peaks: 30 WARNING @ Mon, 29 Jun 2020 22:37:32: Too few paired peaks (30) so I can not build the model! Broader your MFOLD range parameter may erase this error. If it still can't build the model, we suggest to use --nomodel and --extsize 147 or other fixed number instead. WARNING @ Mon, 29 Jun 2020 22:37:32: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX1038033/SRX1038033.20_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1038033/SRX1038033.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1038033/SRX1038033.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1038033/SRX1038033.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。