Job ID = 6527654 SRX = SRX191916 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T12:57:12 prefetch.2.10.7: 1) Downloading 'SRR580346'... 2020-06-29T12:57:12 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:01:12 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:01:12 prefetch.2.10.7: 1) 'SRR580346' was downloaded successfully Read 37267715 spots for SRR580346/SRR580346.sra Written 37267715 spots for SRR580346/SRR580346.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: 00:00:00 Time loading mirror index: 00:00:01 Multiseed full-index search: 00:11:43 37267715 reads; of these: 37267715 (100.00%) were unpaired; of these: 1009929 (2.71%) aligned 0 times 24722830 (66.34%) aligned exactly 1 time 11534956 (30.95%) aligned >1 times 97.29% overall alignment rate Time searching: 00:11:44 Overall time: 00:11:44 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 12 files... [bam_rmdupse_core] 7483629 / 36257786 = 0.2064 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 22:28:55: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX191916/SRX191916.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX191916/SRX191916.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX191916/SRX191916.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX191916/SRX191916.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 22:28:55: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:28:55: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:29:00: 1000000 INFO @ Mon, 29 Jun 2020 22:29:04: 2000000 INFO @ Mon, 29 Jun 2020 22:29:09: 3000000 INFO @ Mon, 29 Jun 2020 22:29:13: 4000000 INFO @ Mon, 29 Jun 2020 22:29:17: 5000000 INFO @ Mon, 29 Jun 2020 22:29:22: 6000000 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 22:29:25: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX191916/SRX191916.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX191916/SRX191916.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX191916/SRX191916.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX191916/SRX191916.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 22:29:25: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:29:25: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:29:26: 7000000 INFO @ Mon, 29 Jun 2020 22:29:30: 1000000 INFO @ Mon, 29 Jun 2020 22:29:30: 8000000 INFO @ Mon, 29 Jun 2020 22:29:35: 2000000 INFO @ Mon, 29 Jun 2020 22:29:35: 9000000 INFO @ Mon, 29 Jun 2020 22:29:39: 3000000 INFO @ Mon, 29 Jun 2020 22:29:39: 10000000 INFO @ Mon, 29 Jun 2020 22:29:44: 4000000 INFO @ Mon, 29 Jun 2020 22:29:44: 11000000 INFO @ Mon, 29 Jun 2020 22:29:48: 5000000 INFO @ Mon, 29 Jun 2020 22:29:48: 12000000 INFO @ Mon, 29 Jun 2020 22:29:53: 6000000 INFO @ Mon, 29 Jun 2020 22:29:53: 13000000 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 @ Mon, 29 Jun 2020 22:29:55: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX191916/SRX191916.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX191916/SRX191916.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX191916/SRX191916.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX191916/SRX191916.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 22:29:55: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:29:55: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:29:57: 7000000 INFO @ Mon, 29 Jun 2020 22:29:58: 14000000 INFO @ Mon, 29 Jun 2020 22:30:00: 1000000 INFO @ Mon, 29 Jun 2020 22:30:02: 8000000 INFO @ Mon, 29 Jun 2020 22:30:02: 15000000 INFO @ Mon, 29 Jun 2020 22:30:05: 2000000 INFO @ Mon, 29 Jun 2020 22:30:06: 9000000 INFO @ Mon, 29 Jun 2020 22:30:07: 16000000 INFO @ Mon, 29 Jun 2020 22:30:09: 3000000 INFO @ Mon, 29 Jun 2020 22:30:11: 10000000 INFO @ Mon, 29 Jun 2020 22:30:11: 17000000 INFO @ Mon, 29 Jun 2020 22:30:14: 4000000 INFO @ Mon, 29 Jun 2020 22:30:15: 11000000 INFO @ Mon, 29 Jun 2020 22:30:16: 18000000 INFO @ Mon, 29 Jun 2020 22:30:18: 5000000 INFO @ Mon, 29 Jun 2020 22:30:19: 12000000 INFO @ Mon, 29 Jun 2020 22:30:20: 19000000 INFO @ Mon, 29 Jun 2020 22:30:23: 6000000 INFO @ Mon, 29 Jun 2020 22:30:24: 13000000 INFO @ Mon, 29 Jun 2020 22:30:25: 20000000 INFO @ Mon, 29 Jun 2020 22:30:27: 7000000 INFO @ Mon, 29 Jun 2020 22:30:29: 14000000 INFO @ Mon, 29 Jun 2020 22:30:29: 21000000 INFO @ Mon, 29 Jun 2020 22:30:32: 8000000 INFO @ Mon, 29 Jun 2020 22:30:33: 15000000 INFO @ Mon, 29 Jun 2020 22:30:34: 22000000 INFO @ Mon, 29 Jun 2020 22:30:36: 9000000 INFO @ Mon, 29 Jun 2020 22:30:38: 16000000 INFO @ Mon, 29 Jun 2020 22:30:39: 23000000 INFO @ Mon, 29 Jun 2020 22:30:41: 10000000 INFO @ Mon, 29 Jun 2020 22:30:42: 17000000 INFO @ Mon, 29 Jun 2020 22:30:43: 24000000 INFO @ Mon, 29 Jun 2020 22:30:45: 11000000 INFO @ Mon, 29 Jun 2020 22:30:47: 18000000 INFO @ Mon, 29 Jun 2020 22:30:48: 25000000 INFO @ Mon, 29 Jun 2020 22:30:50: 12000000 INFO @ Mon, 29 Jun 2020 22:30:51: 19000000 INFO @ Mon, 29 Jun 2020 22:30:52: 26000000 INFO @ Mon, 29 Jun 2020 22:30:54: 13000000 INFO @ Mon, 29 Jun 2020 22:30:56: 20000000 INFO @ Mon, 29 Jun 2020 22:30:57: 27000000 INFO @ Mon, 29 Jun 2020 22:30:59: 14000000 INFO @ Mon, 29 Jun 2020 22:31:01: 21000000 INFO @ Mon, 29 Jun 2020 22:31:02: 28000000 INFO @ Mon, 29 Jun 2020 22:31:04: 15000000 INFO @ Mon, 29 Jun 2020 22:31:05: 22000000 INFO @ Mon, 29 Jun 2020 22:31:05: #1 tag size is determined as 36 bps INFO @ Mon, 29 Jun 2020 22:31:05: #1 tag size = 36 INFO @ Mon, 29 Jun 2020 22:31:05: #1 total tags in treatment: 28774157 INFO @ Mon, 29 Jun 2020 22:31:05: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:31:05: #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 22:31:06: #1 tags after filtering in treatment: 28774157 INFO @ Mon, 29 Jun 2020 22:31:06: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:31:06: #1 finished! INFO @ Mon, 29 Jun 2020 22:31:06: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:31:06: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:31:08: #2 number of paired peaks: 20 WARNING @ Mon, 29 Jun 2020 22:31:08: Too few paired peaks (20) 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 22:31:08: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX191916/SRX191916.05_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX191916/SRX191916.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX191916/SRX191916.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX191916/SRX191916.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:31:08: 16000000 INFO @ Mon, 29 Jun 2020 22:31:10: 23000000 INFO @ Mon, 29 Jun 2020 22:31:13: 17000000 INFO @ Mon, 29 Jun 2020 22:31:14: 24000000 INFO @ Mon, 29 Jun 2020 22:31:17: 18000000 INFO @ Mon, 29 Jun 2020 22:31:19: 25000000 INFO @ Mon, 29 Jun 2020 22:31:22: 19000000 INFO @ Mon, 29 Jun 2020 22:31:24: 26000000 INFO @ Mon, 29 Jun 2020 22:31:27: 20000000 INFO @ Mon, 29 Jun 2020 22:31:28: 27000000 INFO @ Mon, 29 Jun 2020 22:31:31: 21000000 INFO @ Mon, 29 Jun 2020 22:31:33: 28000000 INFO @ Mon, 29 Jun 2020 22:31:36: 22000000 INFO @ Mon, 29 Jun 2020 22:31:37: #1 tag size is determined as 36 bps INFO @ Mon, 29 Jun 2020 22:31:37: #1 tag size = 36 INFO @ Mon, 29 Jun 2020 22:31:37: #1 total tags in treatment: 28774157 INFO @ Mon, 29 Jun 2020 22:31:37: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:31:37: #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 22:31:37: #1 tags after filtering in treatment: 28774157 INFO @ Mon, 29 Jun 2020 22:31:37: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:31:37: #1 finished! INFO @ Mon, 29 Jun 2020 22:31:37: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:31:37: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:31:39: #2 number of paired peaks: 20 WARNING @ Mon, 29 Jun 2020 22:31:39: Too few paired peaks (20) 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 22:31:39: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX191916/SRX191916.10_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/SRX191916/SRX191916.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX191916/SRX191916.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX191916/SRX191916.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:31:40: 23000000 INFO @ Mon, 29 Jun 2020 22:31:45: 24000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 22:31:49: 25000000 INFO @ Mon, 29 Jun 2020 22:31:54: 26000000 INFO @ Mon, 29 Jun 2020 22:31:58: 27000000 INFO @ Mon, 29 Jun 2020 22:32:03: 28000000 INFO @ Mon, 29 Jun 2020 22:32:07: #1 tag size is determined as 36 bps INFO @ Mon, 29 Jun 2020 22:32:07: #1 tag size = 36 INFO @ Mon, 29 Jun 2020 22:32:07: #1 total tags in treatment: 28774157 INFO @ Mon, 29 Jun 2020 22:32:07: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:32:07: #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 22:32:07: #1 tags after filtering in treatment: 28774157 INFO @ Mon, 29 Jun 2020 22:32:07: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:32:07: #1 finished! INFO @ Mon, 29 Jun 2020 22:32:07: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:32:07: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:32:09: #2 number of paired peaks: 20 WARNING @ Mon, 29 Jun 2020 22:32:09: Too few paired peaks (20) 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 22:32:09: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX191916/SRX191916.20_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/SRX191916/SRX191916.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX191916/SRX191916.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX191916/SRX191916.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。