Job ID = 6527891 SRX = SRX3068987 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T13:40:56 prefetch.2.10.7: 1) Downloading 'SRR5907463'... 2020-06-29T13:40:56 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:44:32 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:44:32 prefetch.2.10.7: 1) 'SRR5907463' was downloaded successfully Read 20490474 spots for SRR5907463/SRR5907463.sra Written 20490474 spots for SRR5907463/SRR5907463.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: 00:06:01 20490474 reads; of these: 20490474 (100.00%) were unpaired; of these: 2821286 (13.77%) aligned 0 times 14149788 (69.06%) aligned exactly 1 time 3519400 (17.18%) aligned >1 times 86.23% overall alignment rate Time searching: 00:06:03 Overall time: 00:06:03 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] 3689208 / 17669188 = 0.2088 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 23:03:45: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3068987/SRX3068987.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3068987/SRX3068987.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3068987/SRX3068987.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3068987/SRX3068987.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 23:03:45: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:03:45: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:03:52: 1000000 INFO @ Mon, 29 Jun 2020 23:03:58: 2000000 INFO @ Mon, 29 Jun 2020 23:04:05: 3000000 INFO @ Mon, 29 Jun 2020 23:04:11: 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 23:04:15: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3068987/SRX3068987.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3068987/SRX3068987.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3068987/SRX3068987.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3068987/SRX3068987.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 23:04:15: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:04:15: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:04:18: 5000000 INFO @ Mon, 29 Jun 2020 23:04:22: 1000000 INFO @ Mon, 29 Jun 2020 23:04:25: 6000000 INFO @ Mon, 29 Jun 2020 23:04:28: 2000000 INFO @ Mon, 29 Jun 2020 23:04:31: 7000000 INFO @ Mon, 29 Jun 2020 23:04:35: 3000000 INFO @ Mon, 29 Jun 2020 23:04:38: 8000000 INFO @ Mon, 29 Jun 2020 23:04:41: 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 23:04:45: 9000000 INFO @ Mon, 29 Jun 2020 23:04:45: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3068987/SRX3068987.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3068987/SRX3068987.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3068987/SRX3068987.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3068987/SRX3068987.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 23:04:45: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:04:45: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:04:48: 5000000 INFO @ Mon, 29 Jun 2020 23:04:52: 10000000 INFO @ Mon, 29 Jun 2020 23:04:54: 1000000 INFO @ Mon, 29 Jun 2020 23:04:55: 6000000 INFO @ Mon, 29 Jun 2020 23:04:59: 11000000 INFO @ Mon, 29 Jun 2020 23:05:02: 7000000 INFO @ Mon, 29 Jun 2020 23:05:02: 2000000 INFO @ Mon, 29 Jun 2020 23:05:05: 12000000 INFO @ Mon, 29 Jun 2020 23:05:09: 8000000 INFO @ Mon, 29 Jun 2020 23:05:11: 3000000 INFO @ Mon, 29 Jun 2020 23:05:12: 13000000 INFO @ Mon, 29 Jun 2020 23:05:16: 9000000 INFO @ Mon, 29 Jun 2020 23:05:19: 4000000 INFO @ Mon, 29 Jun 2020 23:05:19: #1 tag size is determined as 51 bps INFO @ Mon, 29 Jun 2020 23:05:19: #1 tag size = 51 INFO @ Mon, 29 Jun 2020 23:05:19: #1 total tags in treatment: 13979980 INFO @ Mon, 29 Jun 2020 23:05:19: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:05:19: #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 23:05:20: #1 tags after filtering in treatment: 13979980 INFO @ Mon, 29 Jun 2020 23:05:20: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:05:20: #1 finished! INFO @ Mon, 29 Jun 2020 23:05:20: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:05:20: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:05:21: #2 number of paired peaks: 44 WARNING @ Mon, 29 Jun 2020 23:05:21: Too few paired peaks (44) 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 23:05:21: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX3068987/SRX3068987.05_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/SRX3068987/SRX3068987.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3068987/SRX3068987.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3068987/SRX3068987.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:05:23: 10000000 INFO @ Mon, 29 Jun 2020 23:05:26: 5000000 INFO @ Mon, 29 Jun 2020 23:05:29: 11000000 INFO @ Mon, 29 Jun 2020 23:05:33: 6000000 INFO @ Mon, 29 Jun 2020 23:05:36: 12000000 INFO @ Mon, 29 Jun 2020 23:05:40: 7000000 INFO @ Mon, 29 Jun 2020 23:05:43: 13000000 INFO @ Mon, 29 Jun 2020 23:05:47: 8000000 INFO @ Mon, 29 Jun 2020 23:05:50: #1 tag size is determined as 51 bps INFO @ Mon, 29 Jun 2020 23:05:50: #1 tag size = 51 INFO @ Mon, 29 Jun 2020 23:05:50: #1 total tags in treatment: 13979980 INFO @ Mon, 29 Jun 2020 23:05:50: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:05:50: #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 23:05:51: #1 tags after filtering in treatment: 13979980 INFO @ Mon, 29 Jun 2020 23:05:51: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:05:51: #1 finished! INFO @ Mon, 29 Jun 2020 23:05:51: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:05:51: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:05:52: #2 number of paired peaks: 44 WARNING @ Mon, 29 Jun 2020 23:05:52: Too few paired peaks (44) 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 23:05:52: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX3068987/SRX3068987.10_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/SRX3068987/SRX3068987.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3068987/SRX3068987.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3068987/SRX3068987.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:05:53: 9000000 INFO @ Mon, 29 Jun 2020 23:06:00: 10000000 INFO @ Mon, 29 Jun 2020 23:06:06: 11000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 23:06:12: 12000000 INFO @ Mon, 29 Jun 2020 23:06:19: 13000000 INFO @ Mon, 29 Jun 2020 23:06:25: #1 tag size is determined as 51 bps INFO @ Mon, 29 Jun 2020 23:06:25: #1 tag size = 51 INFO @ Mon, 29 Jun 2020 23:06:25: #1 total tags in treatment: 13979980 INFO @ Mon, 29 Jun 2020 23:06:25: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:06:25: #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 23:06:25: #1 tags after filtering in treatment: 13979980 INFO @ Mon, 29 Jun 2020 23:06:25: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:06:25: #1 finished! INFO @ Mon, 29 Jun 2020 23:06:25: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:06:25: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:06:26: #2 number of paired peaks: 44 WARNING @ Mon, 29 Jun 2020 23:06:26: Too few paired peaks (44) 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 23:06:26: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX3068987/SRX3068987.20_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/SRX3068987/SRX3068987.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3068987/SRX3068987.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3068987/SRX3068987.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。