Job ID = 6527478 SRX = SRX025475 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T12:50:24 prefetch.2.10.7: 1) Downloading 'SRR063873'... 2020-06-29T12:50:24 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T12:51:50 prefetch.2.10.7: HTTPS download succeed 2020-06-29T12:51:51 prefetch.2.10.7: 'SRR063873' is valid 2020-06-29T12:51:51 prefetch.2.10.7: 1) 'SRR063873' was downloaded successfully Read 14195241 spots for SRR063873/SRR063873.sra Written 14195241 spots for SRR063873/SRR063873.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: 00:03:27 14195241 reads; of these: 14195241 (100.00%) were unpaired; of these: 1230468 (8.67%) aligned 0 times 10084499 (71.04%) aligned exactly 1 time 2880274 (20.29%) aligned >1 times 91.33% overall alignment rate Time searching: 00:03:27 Overall time: 00:03:27 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_rmdupse_core] 1071736 / 12964773 = 0.0827 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 22:02:15: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX025475/SRX025475.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX025475/SRX025475.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX025475/SRX025475.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX025475/SRX025475.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 22:02:15: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:02:15: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:02:21: 1000000 INFO @ Mon, 29 Jun 2020 22:02:27: 2000000 INFO @ Mon, 29 Jun 2020 22:02:33: 3000000 INFO @ Mon, 29 Jun 2020 22:02:38: 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 22:02:45: 5000000 INFO @ Mon, 29 Jun 2020 22:02:45: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX025475/SRX025475.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX025475/SRX025475.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX025475/SRX025475.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX025475/SRX025475.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 22:02:45: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:02:45: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:02:52: 6000000 INFO @ Mon, 29 Jun 2020 22:02:52: 1000000 INFO @ Mon, 29 Jun 2020 22:02:59: 2000000 INFO @ Mon, 29 Jun 2020 22:02:59: 7000000 INFO @ Mon, 29 Jun 2020 22:03:06: 8000000 INFO @ Mon, 29 Jun 2020 22:03:06: 3000000 INFO @ Mon, 29 Jun 2020 22:03:12: 9000000 INFO @ Mon, 29 Jun 2020 22:03:13: 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 22:03:15: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX025475/SRX025475.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX025475/SRX025475.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX025475/SRX025475.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX025475/SRX025475.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 22:03:15: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:03:15: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:03:19: 10000000 INFO @ Mon, 29 Jun 2020 22:03:20: 5000000 INFO @ Mon, 29 Jun 2020 22:03:22: 1000000 INFO @ Mon, 29 Jun 2020 22:03:26: 11000000 INFO @ Mon, 29 Jun 2020 22:03:27: 6000000 INFO @ Mon, 29 Jun 2020 22:03:30: 2000000 INFO @ Mon, 29 Jun 2020 22:03:32: #1 tag size is determined as 36 bps INFO @ Mon, 29 Jun 2020 22:03:32: #1 tag size = 36 INFO @ Mon, 29 Jun 2020 22:03:32: #1 total tags in treatment: 11893037 INFO @ Mon, 29 Jun 2020 22:03:32: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:03:32: #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 22:03:32: #1 tags after filtering in treatment: 11893037 INFO @ Mon, 29 Jun 2020 22:03:32: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:03:32: #1 finished! INFO @ Mon, 29 Jun 2020 22:03:32: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:03:32: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:03:33: #2 number of paired peaks: 94 WARNING @ Mon, 29 Jun 2020 22:03:33: Too few paired peaks (94) 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 22:03:33: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX025475/SRX025475.05_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/SRX025475/SRX025475.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX025475/SRX025475.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX025475/SRX025475.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:03:35: 7000000 INFO @ Mon, 29 Jun 2020 22:03:37: 3000000 INFO @ Mon, 29 Jun 2020 22:03:42: 8000000 INFO @ Mon, 29 Jun 2020 22:03:44: 4000000 INFO @ Mon, 29 Jun 2020 22:03:49: 9000000 INFO @ Mon, 29 Jun 2020 22:03:51: 5000000 INFO @ Mon, 29 Jun 2020 22:03:56: 10000000 INFO @ Mon, 29 Jun 2020 22:03:59: 6000000 INFO @ Mon, 29 Jun 2020 22:04:03: 11000000 INFO @ Mon, 29 Jun 2020 22:04:06: 7000000 INFO @ Mon, 29 Jun 2020 22:04:10: #1 tag size is determined as 36 bps INFO @ Mon, 29 Jun 2020 22:04:10: #1 tag size = 36 INFO @ Mon, 29 Jun 2020 22:04:10: #1 total tags in treatment: 11893037 INFO @ Mon, 29 Jun 2020 22:04:10: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:04:10: #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 22:04:10: #1 tags after filtering in treatment: 11893037 INFO @ Mon, 29 Jun 2020 22:04:10: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:04:10: #1 finished! INFO @ Mon, 29 Jun 2020 22:04:10: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:04:10: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:04:11: #2 number of paired peaks: 94 WARNING @ Mon, 29 Jun 2020 22:04:11: Too few paired peaks (94) 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 22:04:11: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX025475/SRX025475.10_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/SRX025475/SRX025475.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX025475/SRX025475.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX025475/SRX025475.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 22:04:13: 8000000 INFO @ Mon, 29 Jun 2020 22:04:20: 9000000 INFO @ Mon, 29 Jun 2020 22:04:27: 10000000 INFO @ Mon, 29 Jun 2020 22:04:33: 11000000 INFO @ Mon, 29 Jun 2020 22:04:39: #1 tag size is determined as 36 bps INFO @ Mon, 29 Jun 2020 22:04:39: #1 tag size = 36 INFO @ Mon, 29 Jun 2020 22:04:39: #1 total tags in treatment: 11893037 INFO @ Mon, 29 Jun 2020 22:04:39: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:04:39: #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 22:04:40: #1 tags after filtering in treatment: 11893037 INFO @ Mon, 29 Jun 2020 22:04:40: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:04:40: #1 finished! INFO @ Mon, 29 Jun 2020 22:04:40: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:04:40: #2 looking for paired plus/minus strand peaks... BigWig に変換しました。 INFO @ Mon, 29 Jun 2020 22:04:40: #2 number of paired peaks: 94 WARNING @ Mon, 29 Jun 2020 22:04:40: Too few paired peaks (94) 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 22:04:40: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX025475/SRX025475.20_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/SRX025475/SRX025475.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX025475/SRX025475.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX025475/SRX025475.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling