Job ID = 6527892 SRX = SRX3068991 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T13:58:20 prefetch.2.10.7: 1) Downloading 'SRR5907467'... 2020-06-29T13:58:20 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) 'SRR5907467' was downloaded successfully Read 22405881 spots for SRR5907467/SRR5907467.sra Written 22405881 spots for SRR5907467/SRR5907467.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: 00:07:10 22405881 reads; of these: 22405881 (100.00%) were unpaired; of these: 1598386 (7.13%) aligned 0 times 17173622 (76.65%) aligned exactly 1 time 3633873 (16.22%) aligned >1 times 92.87% overall alignment rate Time searching: 00:07:10 Overall time: 00:07:10 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 12 files... [bam_rmdupse_core] 7068594 / 20807495 = 0.3397 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 23:21:48: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3068991/SRX3068991.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3068991/SRX3068991.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3068991/SRX3068991.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3068991/SRX3068991.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 23:21:48: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:21:48: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:21:55: 1000000 INFO @ Mon, 29 Jun 2020 23:22:02: 2000000 INFO @ Mon, 29 Jun 2020 23:22:09: 3000000 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 23:22:16: 4000000 INFO @ Mon, 29 Jun 2020 23:22:18: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3068991/SRX3068991.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3068991/SRX3068991.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3068991/SRX3068991.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3068991/SRX3068991.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 23:22:18: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:22:18: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:22:23: 5000000 INFO @ Mon, 29 Jun 2020 23:22:26: 1000000 INFO @ Mon, 29 Jun 2020 23:22:30: 6000000 INFO @ Mon, 29 Jun 2020 23:22:34: 2000000 INFO @ Mon, 29 Jun 2020 23:22:37: 7000000 INFO @ Mon, 29 Jun 2020 23:22:42: 3000000 INFO @ Mon, 29 Jun 2020 23:22:44: 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 23:22:48: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3068991/SRX3068991.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3068991/SRX3068991.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3068991/SRX3068991.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3068991/SRX3068991.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 23:22:48: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:22:48: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:22:50: 4000000 INFO @ Mon, 29 Jun 2020 23:22:51: 9000000 INFO @ Mon, 29 Jun 2020 23:22:57: 1000000 INFO @ Mon, 29 Jun 2020 23:22:59: 10000000 INFO @ Mon, 29 Jun 2020 23:22:59: 5000000 INFO @ Mon, 29 Jun 2020 23:23:06: 2000000 INFO @ Mon, 29 Jun 2020 23:23:07: 11000000 INFO @ Mon, 29 Jun 2020 23:23:08: 6000000 INFO @ Mon, 29 Jun 2020 23:23:14: 12000000 INFO @ Mon, 29 Jun 2020 23:23:14: 3000000 INFO @ Mon, 29 Jun 2020 23:23:17: 7000000 INFO @ Mon, 29 Jun 2020 23:23:21: 13000000 INFO @ Mon, 29 Jun 2020 23:23:23: 4000000 INFO @ Mon, 29 Jun 2020 23:23:26: 8000000 INFO @ Mon, 29 Jun 2020 23:23:26: #1 tag size is determined as 51 bps INFO @ Mon, 29 Jun 2020 23:23:26: #1 tag size = 51 INFO @ Mon, 29 Jun 2020 23:23:26: #1 total tags in treatment: 13738901 INFO @ Mon, 29 Jun 2020 23:23:26: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:23:26: #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 23:23:26: #1 tags after filtering in treatment: 13738901 INFO @ Mon, 29 Jun 2020 23:23:26: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:23:26: #1 finished! INFO @ Mon, 29 Jun 2020 23:23:26: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:23:26: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:23:27: #2 number of paired peaks: 82 WARNING @ Mon, 29 Jun 2020 23:23:27: Too few paired peaks (82) 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 23:23:27: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX3068991/SRX3068991.05_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/SRX3068991/SRX3068991.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3068991/SRX3068991.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3068991/SRX3068991.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:23:32: 5000000 INFO @ Mon, 29 Jun 2020 23:23:34: 9000000 INFO @ Mon, 29 Jun 2020 23:23:41: 6000000 INFO @ Mon, 29 Jun 2020 23:23:43: 10000000 INFO @ Mon, 29 Jun 2020 23:23:50: 7000000 INFO @ Mon, 29 Jun 2020 23:23:52: 11000000 INFO @ Mon, 29 Jun 2020 23:23:58: 8000000 INFO @ Mon, 29 Jun 2020 23:24:01: 12000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 23:24:07: 9000000 INFO @ Mon, 29 Jun 2020 23:24:10: 13000000 INFO @ Mon, 29 Jun 2020 23:24:16: 10000000 INFO @ Mon, 29 Jun 2020 23:24:16: #1 tag size is determined as 51 bps INFO @ Mon, 29 Jun 2020 23:24:16: #1 tag size = 51 INFO @ Mon, 29 Jun 2020 23:24:16: #1 total tags in treatment: 13738901 INFO @ Mon, 29 Jun 2020 23:24:16: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:24:16: #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 23:24:16: #1 tags after filtering in treatment: 13738901 INFO @ Mon, 29 Jun 2020 23:24:16: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:24:16: #1 finished! INFO @ Mon, 29 Jun 2020 23:24:16: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:24:16: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:24:17: #2 number of paired peaks: 82 WARNING @ Mon, 29 Jun 2020 23:24:17: Too few paired peaks (82) 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 23:24:17: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX3068991/SRX3068991.10_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/SRX3068991/SRX3068991.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3068991/SRX3068991.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3068991/SRX3068991.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:24:23: 11000000 INFO @ Mon, 29 Jun 2020 23:24:31: 12000000 INFO @ Mon, 29 Jun 2020 23:24:39: 13000000 INFO @ Mon, 29 Jun 2020 23:24:44: #1 tag size is determined as 51 bps INFO @ Mon, 29 Jun 2020 23:24:44: #1 tag size = 51 INFO @ Mon, 29 Jun 2020 23:24:44: #1 total tags in treatment: 13738901 INFO @ Mon, 29 Jun 2020 23:24:44: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:24:44: #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 23:24:44: #1 tags after filtering in treatment: 13738901 INFO @ Mon, 29 Jun 2020 23:24:44: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:24:44: #1 finished! INFO @ Mon, 29 Jun 2020 23:24:44: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:24:44: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:24:45: #2 number of paired peaks: 82 WARNING @ Mon, 29 Jun 2020 23:24:45: Too few paired peaks (82) 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 23:24:45: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX3068991/SRX3068991.20_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/SRX3068991/SRX3068991.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3068991/SRX3068991.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3068991/SRX3068991.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。