Job ID = 6527946 SRX = SRX335500 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T13:57:03 prefetch.2.10.7: 1) Downloading 'SRR952842'... 2020-06-29T13:57:03 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T14:00:17 prefetch.2.10.7: HTTPS download succeed 2020-06-29T14:00:17 prefetch.2.10.7: 1) 'SRR952842' was downloaded successfully Read 27086977 spots for SRR952842/SRR952842.sra Written 27086977 spots for SRR952842/SRR952842.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: 00:06:17 27086977 reads; of these: 27086977 (100.00%) were unpaired; of these: 3739160 (13.80%) aligned 0 times 20134126 (74.33%) aligned exactly 1 time 3213691 (11.86%) aligned >1 times 86.20% overall alignment rate Time searching: 00:06:17 Overall time: 00:06:17 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] 6944179 / 23347817 = 0.2974 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 23:20:39: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX335500/SRX335500.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX335500/SRX335500.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX335500/SRX335500.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX335500/SRX335500.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 23:20:39: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:20:39: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:20:46: 1000000 INFO @ Mon, 29 Jun 2020 23:20:52: 2000000 INFO @ Mon, 29 Jun 2020 23:20:59: 3000000 INFO @ Mon, 29 Jun 2020 23:21:05: 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 23:21:09: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX335500/SRX335500.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX335500/SRX335500.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX335500/SRX335500.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX335500/SRX335500.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 23:21:09: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:21:09: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:21:12: 5000000 INFO @ Mon, 29 Jun 2020 23:21:18: 1000000 INFO @ Mon, 29 Jun 2020 23:21:20: 6000000 INFO @ Mon, 29 Jun 2020 23:21:27: 2000000 INFO @ Mon, 29 Jun 2020 23:21:28: 7000000 INFO @ Mon, 29 Jun 2020 23:21:36: 3000000 INFO @ Mon, 29 Jun 2020 23:21:36: 8000000 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 23:21:39: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX335500/SRX335500.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX335500/SRX335500.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX335500/SRX335500.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX335500/SRX335500.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 23:21:39: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:21:39: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:21:44: 4000000 INFO @ Mon, 29 Jun 2020 23:21:45: 9000000 INFO @ Mon, 29 Jun 2020 23:21:48: 1000000 INFO @ Mon, 29 Jun 2020 23:21:53: 5000000 INFO @ Mon, 29 Jun 2020 23:21:53: 10000000 INFO @ Mon, 29 Jun 2020 23:21:57: 2000000 INFO @ Mon, 29 Jun 2020 23:22:01: 11000000 INFO @ Mon, 29 Jun 2020 23:22:01: 6000000 INFO @ Mon, 29 Jun 2020 23:22:06: 3000000 INFO @ Mon, 29 Jun 2020 23:22:09: 12000000 INFO @ Mon, 29 Jun 2020 23:22:10: 7000000 INFO @ Mon, 29 Jun 2020 23:22:15: 4000000 INFO @ Mon, 29 Jun 2020 23:22:17: 13000000 INFO @ Mon, 29 Jun 2020 23:22:18: 8000000 INFO @ Mon, 29 Jun 2020 23:22:23: 5000000 INFO @ Mon, 29 Jun 2020 23:22:25: 14000000 INFO @ Mon, 29 Jun 2020 23:22:27: 9000000 INFO @ Mon, 29 Jun 2020 23:22:32: 6000000 INFO @ Mon, 29 Jun 2020 23:22:34: 15000000 INFO @ Mon, 29 Jun 2020 23:22:35: 10000000 INFO @ Mon, 29 Jun 2020 23:22:40: 7000000 INFO @ Mon, 29 Jun 2020 23:22:42: 16000000 INFO @ Mon, 29 Jun 2020 23:22:44: 11000000 INFO @ Mon, 29 Jun 2020 23:22:45: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 23:22:45: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 23:22:45: #1 total tags in treatment: 16403638 INFO @ Mon, 29 Jun 2020 23:22:45: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:22:45: #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 23:22:46: #1 tags after filtering in treatment: 16403638 INFO @ Mon, 29 Jun 2020 23:22:46: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:22:46: #1 finished! INFO @ Mon, 29 Jun 2020 23:22:46: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:22:46: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:22:47: #2 number of paired peaks: 9 WARNING @ Mon, 29 Jun 2020 23:22:47: Too few paired peaks (9) 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 23:22:47: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX335500/SRX335500.05_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/SRX335500/SRX335500.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX335500/SRX335500.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX335500/SRX335500.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:22:48: 8000000 INFO @ Mon, 29 Jun 2020 23:22:52: 12000000 INFO @ Mon, 29 Jun 2020 23:22:57: 9000000 INFO @ Mon, 29 Jun 2020 23:23:00: 13000000 INFO @ Mon, 29 Jun 2020 23:23:05: 10000000 INFO @ Mon, 29 Jun 2020 23:23:08: 14000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 23:23:13: 11000000 INFO @ Mon, 29 Jun 2020 23:23:16: 15000000 INFO @ Mon, 29 Jun 2020 23:23:21: 12000000 INFO @ Mon, 29 Jun 2020 23:23:24: 16000000 INFO @ Mon, 29 Jun 2020 23:23:28: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 23:23:28: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 23:23:28: #1 total tags in treatment: 16403638 INFO @ Mon, 29 Jun 2020 23:23:28: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:23:28: #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 23:23:28: #1 tags after filtering in treatment: 16403638 INFO @ Mon, 29 Jun 2020 23:23:28: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:23:28: #1 finished! INFO @ Mon, 29 Jun 2020 23:23:28: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:23:28: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:23:29: #2 number of paired peaks: 9 WARNING @ Mon, 29 Jun 2020 23:23:29: Too few paired peaks (9) 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 23:23:29: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX335500/SRX335500.10_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/SRX335500/SRX335500.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX335500/SRX335500.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX335500/SRX335500.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:23:29: 13000000 INFO @ Mon, 29 Jun 2020 23:23:37: 14000000 INFO @ Mon, 29 Jun 2020 23:23:45: 15000000 BigWig に変換しました。 INFO @ Mon, 29 Jun 2020 23:23:52: 16000000 INFO @ Mon, 29 Jun 2020 23:23:55: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 23:23:55: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 23:23:55: #1 total tags in treatment: 16403638 INFO @ Mon, 29 Jun 2020 23:23:55: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:23:55: #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 23:23:56: #1 tags after filtering in treatment: 16403638 INFO @ Mon, 29 Jun 2020 23:23:56: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:23:56: #1 finished! INFO @ Mon, 29 Jun 2020 23:23:56: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:23:56: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:23:57: #2 number of paired peaks: 9 WARNING @ Mon, 29 Jun 2020 23:23:57: Too few paired peaks (9) 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 23:23:57: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX335500/SRX335500.20_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 3 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX335500/SRX335500.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX335500/SRX335500.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX335500/SRX335500.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling