Job ID = 6527509 SRX = SRX041391 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T12:55:23 prefetch.2.10.7: 1) Downloading 'SRR099123'... 2020-06-29T12:55:23 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T12:57:31 prefetch.2.10.7: HTTPS download succeed 2020-06-29T12:57:32 prefetch.2.10.7: 'SRR099123' is valid 2020-06-29T12:57:32 prefetch.2.10.7: 1) 'SRR099123' was downloaded successfully Read 21268667 spots for SRR099123/SRR099123.sra Written 21268667 spots for SRR099123/SRR099123.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: 00:05:51 21268667 reads; of these: 21268667 (100.00%) were unpaired; of these: 890521 (4.19%) aligned 0 times 14940162 (70.24%) aligned exactly 1 time 5437984 (25.57%) aligned >1 times 95.81% overall alignment rate Time searching: 00:05:51 Overall time: 00:05:51 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] 2300470 / 20378146 = 0.1129 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 22:13:12: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX041391/SRX041391.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX041391/SRX041391.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX041391/SRX041391.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX041391/SRX041391.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 22:13:12: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:13:12: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:13:17: 1000000 INFO @ Mon, 29 Jun 2020 22:13:22: 2000000 INFO @ Mon, 29 Jun 2020 22:13:27: 3000000 INFO @ Mon, 29 Jun 2020 22:13:32: 4000000 INFO @ Mon, 29 Jun 2020 22:13:37: 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 22:13:42: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX041391/SRX041391.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX041391/SRX041391.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX041391/SRX041391.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX041391/SRX041391.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 22:13:42: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:13:42: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:13:43: 6000000 INFO @ Mon, 29 Jun 2020 22:13:48: 1000000 INFO @ Mon, 29 Jun 2020 22:13:49: 7000000 INFO @ Mon, 29 Jun 2020 22:13:54: 2000000 INFO @ Mon, 29 Jun 2020 22:13:55: 8000000 INFO @ Mon, 29 Jun 2020 22:14:00: 3000000 INFO @ Mon, 29 Jun 2020 22:14:01: 9000000 INFO @ Mon, 29 Jun 2020 22:14:06: 4000000 INFO @ Mon, 29 Jun 2020 22:14:07: 10000000 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 22:14:12: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX041391/SRX041391.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX041391/SRX041391.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX041391/SRX041391.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX041391/SRX041391.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 22:14:12: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:14:12: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:14:12: 5000000 INFO @ Mon, 29 Jun 2020 22:14:13: 11000000 INFO @ Mon, 29 Jun 2020 22:14:18: 1000000 INFO @ Mon, 29 Jun 2020 22:14:18: 6000000 INFO @ Mon, 29 Jun 2020 22:14:19: 12000000 INFO @ Mon, 29 Jun 2020 22:14:24: 2000000 INFO @ Mon, 29 Jun 2020 22:14:24: 7000000 INFO @ Mon, 29 Jun 2020 22:14:25: 13000000 INFO @ Mon, 29 Jun 2020 22:14:30: 3000000 INFO @ Mon, 29 Jun 2020 22:14:30: 8000000 INFO @ Mon, 29 Jun 2020 22:14:31: 14000000 INFO @ Mon, 29 Jun 2020 22:14:36: 4000000 INFO @ Mon, 29 Jun 2020 22:14:36: 9000000 INFO @ Mon, 29 Jun 2020 22:14:37: 15000000 INFO @ Mon, 29 Jun 2020 22:14:42: 5000000 INFO @ Mon, 29 Jun 2020 22:14:43: 10000000 INFO @ Mon, 29 Jun 2020 22:14:43: 16000000 INFO @ Mon, 29 Jun 2020 22:14:48: 6000000 INFO @ Mon, 29 Jun 2020 22:14:49: 11000000 INFO @ Mon, 29 Jun 2020 22:14:49: 17000000 INFO @ Mon, 29 Jun 2020 22:14:54: 7000000 INFO @ Mon, 29 Jun 2020 22:14:55: 12000000 INFO @ Mon, 29 Jun 2020 22:14:55: 18000000 INFO @ Mon, 29 Jun 2020 22:14:56: #1 tag size is determined as 36 bps INFO @ Mon, 29 Jun 2020 22:14:56: #1 tag size = 36 INFO @ Mon, 29 Jun 2020 22:14:56: #1 total tags in treatment: 18077676 INFO @ Mon, 29 Jun 2020 22:14:56: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:14:56: #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 22:14:56: #1 tags after filtering in treatment: 18077676 INFO @ Mon, 29 Jun 2020 22:14:56: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:14:56: #1 finished! INFO @ Mon, 29 Jun 2020 22:14:56: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:14:56: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:14:57: #2 number of paired peaks: 89 WARNING @ Mon, 29 Jun 2020 22:14:57: Too few paired peaks (89) 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 22:14:57: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX041391/SRX041391.05_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/SRX041391/SRX041391.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX041391/SRX041391.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX041391/SRX041391.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:15:00: 8000000 INFO @ Mon, 29 Jun 2020 22:15:01: 13000000 INFO @ Mon, 29 Jun 2020 22:15:06: 9000000 INFO @ Mon, 29 Jun 2020 22:15:07: 14000000 INFO @ Mon, 29 Jun 2020 22:15:12: 10000000 INFO @ Mon, 29 Jun 2020 22:15:13: 15000000 INFO @ Mon, 29 Jun 2020 22:15:18: 11000000 INFO @ Mon, 29 Jun 2020 22:15:19: 16000000 INFO @ Mon, 29 Jun 2020 22:15:23: 12000000 INFO @ Mon, 29 Jun 2020 22:15:25: 17000000 INFO @ Mon, 29 Jun 2020 22:15:29: 13000000 INFO @ Mon, 29 Jun 2020 22:15:30: 18000000 INFO @ Mon, 29 Jun 2020 22:15:31: #1 tag size is determined as 36 bps INFO @ Mon, 29 Jun 2020 22:15:31: #1 tag size = 36 INFO @ Mon, 29 Jun 2020 22:15:31: #1 total tags in treatment: 18077676 INFO @ Mon, 29 Jun 2020 22:15:31: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:15:31: #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 22:15:31: #1 tags after filtering in treatment: 18077676 INFO @ Mon, 29 Jun 2020 22:15:31: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:15:31: #1 finished! INFO @ Mon, 29 Jun 2020 22:15:31: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:15:31: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:15:32: #2 number of paired peaks: 89 WARNING @ Mon, 29 Jun 2020 22:15:32: Too few paired peaks (89) 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 22:15:32: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX041391/SRX041391.10_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/SRX041391/SRX041391.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX041391/SRX041391.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX041391/SRX041391.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:15:35: 14000000 INFO @ Mon, 29 Jun 2020 22:15:40: 15000000 INFO @ Mon, 29 Jun 2020 22:15:45: 16000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 22:15:50: 17000000 INFO @ Mon, 29 Jun 2020 22:15:56: 18000000 INFO @ Mon, 29 Jun 2020 22:15:56: #1 tag size is determined as 36 bps INFO @ Mon, 29 Jun 2020 22:15:56: #1 tag size = 36 INFO @ Mon, 29 Jun 2020 22:15:56: #1 total tags in treatment: 18077676 INFO @ Mon, 29 Jun 2020 22:15:56: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:15:56: #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 22:15:56: #1 tags after filtering in treatment: 18077676 INFO @ Mon, 29 Jun 2020 22:15:56: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:15:56: #1 finished! INFO @ Mon, 29 Jun 2020 22:15:56: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:15:56: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:15:58: #2 number of paired peaks: 89 WARNING @ Mon, 29 Jun 2020 22:15:58: Too few paired peaks (89) 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 22:15:58: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX041391/SRX041391.20_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/SRX041391/SRX041391.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX041391/SRX041391.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX041391/SRX041391.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。