Job ID = 6528091 SRX = SRX4510348 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T14:06:02 prefetch.2.10.7: 1) Downloading 'SRR7647398'... 2020-06-29T14:06:02 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T14:09:03 prefetch.2.10.7: HTTPS download succeed 2020-06-29T14:09:03 prefetch.2.10.7: 1) 'SRR7647398' was downloaded successfully 2020-06-29T14:09:03 prefetch.2.10.7: 'SRR7647398' has 0 unresolved dependencies Read 19656463 spots for SRR7647398/SRR7647398.sra Written 19656463 spots for SRR7647398/SRR7647398.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: 00:00:00 Multiseed full-index search: 00:10:00 19656463 reads; of these: 19656463 (100.00%) were unpaired; of these: 1489541 (7.58%) aligned 0 times 15223891 (77.45%) aligned exactly 1 time 2943031 (14.97%) aligned >1 times 92.42% overall alignment rate Time searching: 00:10:00 Overall time: 00:10:00 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 8 files... [bam_rmdupse_core] 1930204 / 18166922 = 0.1062 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 23:37:57: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX4510348/SRX4510348.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX4510348/SRX4510348.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX4510348/SRX4510348.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX4510348/SRX4510348.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 23:37:57: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:37:57: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:38:03: 1000000 INFO @ Mon, 29 Jun 2020 23:38:09: 2000000 INFO @ Mon, 29 Jun 2020 23:38:15: 3000000 INFO @ Mon, 29 Jun 2020 23:38:21: 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 23:38:27: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX4510348/SRX4510348.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX4510348/SRX4510348.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX4510348/SRX4510348.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX4510348/SRX4510348.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 23:38:27: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:38:27: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:38:28: 5000000 INFO @ Mon, 29 Jun 2020 23:38:34: 1000000 INFO @ Mon, 29 Jun 2020 23:38:34: 6000000 INFO @ Mon, 29 Jun 2020 23:38:40: 2000000 INFO @ Mon, 29 Jun 2020 23:38:40: 7000000 INFO @ Mon, 29 Jun 2020 23:38:46: 3000000 INFO @ Mon, 29 Jun 2020 23:38:46: 8000000 INFO @ Mon, 29 Jun 2020 23:38:53: 9000000 INFO @ Mon, 29 Jun 2020 23:38:53: 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 @ Mon, 29 Jun 2020 23:38:57: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX4510348/SRX4510348.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX4510348/SRX4510348.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX4510348/SRX4510348.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX4510348/SRX4510348.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 23:38:57: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:38:57: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:38:59: 10000000 INFO @ Mon, 29 Jun 2020 23:39:00: 5000000 INFO @ Mon, 29 Jun 2020 23:39:05: 1000000 INFO @ Mon, 29 Jun 2020 23:39:07: 11000000 INFO @ Mon, 29 Jun 2020 23:39:07: 6000000 INFO @ Mon, 29 Jun 2020 23:39:12: 2000000 INFO @ Mon, 29 Jun 2020 23:39:14: 7000000 INFO @ Mon, 29 Jun 2020 23:39:14: 12000000 INFO @ Mon, 29 Jun 2020 23:39:20: 3000000 INFO @ Mon, 29 Jun 2020 23:39:21: 8000000 INFO @ Mon, 29 Jun 2020 23:39:21: 13000000 INFO @ Mon, 29 Jun 2020 23:39:27: 4000000 INFO @ Mon, 29 Jun 2020 23:39:28: 9000000 INFO @ Mon, 29 Jun 2020 23:39:29: 14000000 INFO @ Mon, 29 Jun 2020 23:39:34: 5000000 INFO @ Mon, 29 Jun 2020 23:39:36: 15000000 INFO @ Mon, 29 Jun 2020 23:39:36: 10000000 INFO @ Mon, 29 Jun 2020 23:39:41: 6000000 INFO @ Mon, 29 Jun 2020 23:39:43: 11000000 INFO @ Mon, 29 Jun 2020 23:39:43: 16000000 INFO @ Mon, 29 Jun 2020 23:39:45: #1 tag size is determined as 101 bps INFO @ Mon, 29 Jun 2020 23:39:45: #1 tag size = 101 INFO @ Mon, 29 Jun 2020 23:39:45: #1 total tags in treatment: 16236718 INFO @ Mon, 29 Jun 2020 23:39:45: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:39:45: #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 23:39:45: #1 tags after filtering in treatment: 16236718 INFO @ Mon, 29 Jun 2020 23:39:45: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:39:45: #1 finished! INFO @ Mon, 29 Jun 2020 23:39:45: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:39:45: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:39:46: #2 number of paired peaks: 60 WARNING @ Mon, 29 Jun 2020 23:39:46: Too few paired peaks (60) 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 23:39:46: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX4510348/SRX4510348.05_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/SRX4510348/SRX4510348.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX4510348/SRX4510348.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX4510348/SRX4510348.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:39:48: 7000000 INFO @ Mon, 29 Jun 2020 23:39:50: 12000000 INFO @ Mon, 29 Jun 2020 23:39:54: 8000000 INFO @ Mon, 29 Jun 2020 23:39:56: 13000000 INFO @ Mon, 29 Jun 2020 23:40:01: 9000000 INFO @ Mon, 29 Jun 2020 23:40:02: 14000000 INFO @ Mon, 29 Jun 2020 23:40:07: 10000000 INFO @ Mon, 29 Jun 2020 23:40:09: 15000000 INFO @ Mon, 29 Jun 2020 23:40:13: 11000000 INFO @ Mon, 29 Jun 2020 23:40:16: 16000000 INFO @ Mon, 29 Jun 2020 23:40:18: #1 tag size is determined as 101 bps INFO @ Mon, 29 Jun 2020 23:40:18: #1 tag size = 101 INFO @ Mon, 29 Jun 2020 23:40:18: #1 total tags in treatment: 16236718 INFO @ Mon, 29 Jun 2020 23:40:18: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:40:18: #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 23:40:18: #1 tags after filtering in treatment: 16236718 INFO @ Mon, 29 Jun 2020 23:40:18: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:40:18: #1 finished! INFO @ Mon, 29 Jun 2020 23:40:18: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:40:18: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:40:19: #2 number of paired peaks: 60 WARNING @ Mon, 29 Jun 2020 23:40:19: Too few paired peaks (60) 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 23:40:19: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX4510348/SRX4510348.10_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/SRX4510348/SRX4510348.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX4510348/SRX4510348.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX4510348/SRX4510348.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:40:20: 12000000 INFO @ Mon, 29 Jun 2020 23:40:27: 13000000 INFO @ Mon, 29 Jun 2020 23:40:33: 14000000 INFO @ Mon, 29 Jun 2020 23:40:40: 15000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 23:40:47: 16000000 INFO @ Mon, 29 Jun 2020 23:40:49: #1 tag size is determined as 101 bps INFO @ Mon, 29 Jun 2020 23:40:49: #1 tag size = 101 INFO @ Mon, 29 Jun 2020 23:40:49: #1 total tags in treatment: 16236718 INFO @ Mon, 29 Jun 2020 23:40:49: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:40:49: #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 23:40:49: #1 tags after filtering in treatment: 16236718 INFO @ Mon, 29 Jun 2020 23:40:49: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:40:49: #1 finished! INFO @ Mon, 29 Jun 2020 23:40:49: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:40:49: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:40:50: #2 number of paired peaks: 60 WARNING @ Mon, 29 Jun 2020 23:40:50: Too few paired peaks (60) 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 23:40:50: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX4510348/SRX4510348.20_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/SRX4510348/SRX4510348.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX4510348/SRX4510348.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX4510348/SRX4510348.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。