Job ID = 6527620 SRX = SRX1490793 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T13:10:50 prefetch.2.10.7: 1) Downloading 'SRR3031660'... 2020-06-29T13:10:50 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:11:55 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:11:56 prefetch.2.10.7: 'SRR3031660' is valid 2020-06-29T13:11:56 prefetch.2.10.7: 1) 'SRR3031660' was downloaded successfully Read 14328017 spots for SRR3031660/SRR3031660.sra Written 14328017 spots for SRR3031660/SRR3031660.sra fastq に変換しました。 bowtie でマッピング中... Time loading reference: 00:00:01 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:04:02 14328017 reads; of these: 14328017 (100.00%) were unpaired; of these: 843254 (5.89%) aligned 0 times 10832472 (75.60%) aligned exactly 1 time 2652291 (18.51%) aligned >1 times 94.11% overall alignment rate Time searching: 00:04:03 Overall time: 00:04:03 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] 844732 / 13484763 = 0.0626 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 22:23:20: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX1490793/SRX1490793.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX1490793/SRX1490793.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX1490793/SRX1490793.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX1490793/SRX1490793.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 22:23:20: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:23:20: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:23:25: 1000000 INFO @ Mon, 29 Jun 2020 22:23:30: 2000000 INFO @ Mon, 29 Jun 2020 22:23:34: 3000000 INFO @ Mon, 29 Jun 2020 22:23:39: 4000000 INFO @ Mon, 29 Jun 2020 22:23:44: 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 22:23:49: 6000000 INFO @ Mon, 29 Jun 2020 22:23:50: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX1490793/SRX1490793.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX1490793/SRX1490793.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX1490793/SRX1490793.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX1490793/SRX1490793.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 22:23:50: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:23:50: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:23:54: 7000000 INFO @ Mon, 29 Jun 2020 22:23:55: 1000000 INFO @ Mon, 29 Jun 2020 22:23:59: 8000000 INFO @ Mon, 29 Jun 2020 22:24:00: 2000000 INFO @ Mon, 29 Jun 2020 22:24:03: 9000000 INFO @ Mon, 29 Jun 2020 22:24:05: 3000000 INFO @ Mon, 29 Jun 2020 22:24:08: 10000000 INFO @ Mon, 29 Jun 2020 22:24:10: 4000000 INFO @ Mon, 29 Jun 2020 22:24:13: 11000000 INFO @ Mon, 29 Jun 2020 22:24:15: 5000000 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 22:24:18: 12000000 INFO @ Mon, 29 Jun 2020 22:24:20: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX1490793/SRX1490793.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX1490793/SRX1490793.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX1490793/SRX1490793.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX1490793/SRX1490793.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 22:24:20: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:24:20: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:24:20: 6000000 INFO @ Mon, 29 Jun 2020 22:24:21: #1 tag size is determined as 51 bps INFO @ Mon, 29 Jun 2020 22:24:21: #1 tag size = 51 INFO @ Mon, 29 Jun 2020 22:24:21: #1 total tags in treatment: 12640031 INFO @ Mon, 29 Jun 2020 22:24:21: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:24:21: #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 22:24:22: #1 tags after filtering in treatment: 12640031 INFO @ Mon, 29 Jun 2020 22:24:22: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:24:22: #1 finished! INFO @ Mon, 29 Jun 2020 22:24:22: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:24:22: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:24:22: #2 number of paired peaks: 22 WARNING @ Mon, 29 Jun 2020 22:24:22: Too few paired peaks (22) 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 22:24:22: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX1490793/SRX1490793.05_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/SRX1490793/SRX1490793.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1490793/SRX1490793.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1490793/SRX1490793.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:24:25: 7000000 INFO @ Mon, 29 Jun 2020 22:24:25: 1000000 INFO @ Mon, 29 Jun 2020 22:24:30: 8000000 INFO @ Mon, 29 Jun 2020 22:24:30: 2000000 INFO @ Mon, 29 Jun 2020 22:24:35: 9000000 INFO @ Mon, 29 Jun 2020 22:24:35: 3000000 INFO @ Mon, 29 Jun 2020 22:24:40: 10000000 INFO @ Mon, 29 Jun 2020 22:24:40: 4000000 INFO @ Mon, 29 Jun 2020 22:24:45: 11000000 INFO @ Mon, 29 Jun 2020 22:24:45: 5000000 INFO @ Mon, 29 Jun 2020 22:24:50: 12000000 INFO @ Mon, 29 Jun 2020 22:24:50: 6000000 INFO @ Mon, 29 Jun 2020 22:24:53: #1 tag size is determined as 51 bps INFO @ Mon, 29 Jun 2020 22:24:53: #1 tag size = 51 INFO @ Mon, 29 Jun 2020 22:24:53: #1 total tags in treatment: 12640031 INFO @ Mon, 29 Jun 2020 22:24:53: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:24:53: #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 22:24:53: #1 tags after filtering in treatment: 12640031 INFO @ Mon, 29 Jun 2020 22:24:53: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:24:53: #1 finished! INFO @ Mon, 29 Jun 2020 22:24:53: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:24:53: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:24:54: #2 number of paired peaks: 22 WARNING @ Mon, 29 Jun 2020 22:24:54: Too few paired peaks (22) 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 22:24:54: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX1490793/SRX1490793.10_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1490793/SRX1490793.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1490793/SRX1490793.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1490793/SRX1490793.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:24:55: 7000000 INFO @ Mon, 29 Jun 2020 22:25:00: 8000000 INFO @ Mon, 29 Jun 2020 22:25:04: 9000000 INFO @ Mon, 29 Jun 2020 22:25:09: 10000000 INFO @ Mon, 29 Jun 2020 22:25:14: 11000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 22:25:19: 12000000 INFO @ Mon, 29 Jun 2020 22:25:22: #1 tag size is determined as 51 bps INFO @ Mon, 29 Jun 2020 22:25:22: #1 tag size = 51 INFO @ Mon, 29 Jun 2020 22:25:22: #1 total tags in treatment: 12640031 INFO @ Mon, 29 Jun 2020 22:25:22: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:25:22: #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 22:25:22: #1 tags after filtering in treatment: 12640031 INFO @ Mon, 29 Jun 2020 22:25:22: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:25:22: #1 finished! INFO @ Mon, 29 Jun 2020 22:25:22: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:25:22: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:25:23: #2 number of paired peaks: 22 WARNING @ Mon, 29 Jun 2020 22:25:23: Too few paired peaks (22) 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 22:25:23: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX1490793/SRX1490793.20_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/SRX1490793/SRX1490793.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1490793/SRX1490793.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1490793/SRX1490793.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。