Job ID = 14520187 SRX = SRX10592380 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2022-01-15T09:31:36 prefetch.2.10.7: 1) Downloading 'SRR14227540'... 2022-01-15T09:31:36 prefetch.2.10.7: Downloading via HTTPS... 2022-01-15T09:32:45 prefetch.2.10.7: HTTPS download succeed 2022-01-15T09:32:45 prefetch.2.10.7: 1) 'SRR14227540' was downloaded successfully 2022-01-15T09:32:45 prefetch.2.10.7: 'SRR14227540' has 0 unresolved dependencies Read 22561772 spots for SRR14227540/SRR14227540.sra Written 22561772 spots for SRR14227540/SRR14227540.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: 00:13:10 22561772 reads; of these: 22561772 (100.00%) were paired; of these: 633126 (2.81%) aligned concordantly 0 times 16980597 (75.26%) aligned concordantly exactly 1 time 4948049 (21.93%) aligned concordantly >1 times ---- 633126 pairs aligned concordantly 0 times; of these: 58631 (9.26%) aligned discordantly 1 time ---- 574495 pairs aligned 0 times concordantly or discordantly; of these: 1148990 mates make up the pairs; of these: 763370 (66.44%) aligned 0 times 280632 (24.42%) aligned exactly 1 time 104988 (9.14%) aligned >1 times 98.31% overall alignment rate Time searching: 00:13:10 Overall time: 00:13:10 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 17 sequences. [bam_sort_core] merging from 20 files... [bam_rmdup_core] processing reference chrI... [bam_rmdup_core] processing reference chrII... [bam_rmdup_core] processing reference chrIII... [bam_rmdup_core] processing reference chrIV... [bam_rmdup_core] processing reference chrIX... [bam_rmdup_core] processing reference chrM... [bam_rmdup_core] processing reference chrV... [bam_rmdup_core] processing reference chrVI... [bam_rmdup_core] processing reference chrVII... [bam_rmdup_core] processing reference chrVIII... [bam_rmdup_core] processing reference chrX... [bam_rmdup_core] processing reference chrXI... [bam_rmdup_core] processing reference chrXII... [bam_rmdup_core] processing reference chrXIII... [bam_rmdup_core] processing reference chrXIV... [bam_rmdup_core] processing reference chrXV... [bam_rmdup_core] processing reference chrXVI... [bam_rmdup_core] 7388676 / 21984063 = 0.3361 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/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 15 Jan 2022 18:56:45: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX10592380/SRX10592380.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX10592380/SRX10592380.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX10592380/SRX10592380.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX10592380/SRX10592380.bam'] # control file = None # effective genome size = 1.21e+07 # 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 @ Sat, 15 Jan 2022 18:56:45: #1 read tag files... INFO @ Sat, 15 Jan 2022 18:56:45: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 18:56:51: 1000000 INFO @ Sat, 15 Jan 2022 18:56:57: 2000000 INFO @ Sat, 15 Jan 2022 18:57:02: 3000000 INFO @ Sat, 15 Jan 2022 18:57:08: 4000000 WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 15 Jan 2022 18:57:14: 5000000 INFO @ Sat, 15 Jan 2022 18:57:15: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX10592380/SRX10592380.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX10592380/SRX10592380.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX10592380/SRX10592380.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX10592380/SRX10592380.bam'] # control file = None # effective genome size = 1.21e+07 # 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 @ Sat, 15 Jan 2022 18:57:15: #1 read tag files... INFO @ Sat, 15 Jan 2022 18:57:15: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 18:57:20: 6000000 INFO @ Sat, 15 Jan 2022 18:57:21: 1000000 INFO @ Sat, 15 Jan 2022 18:57:27: 7000000 INFO @ Sat, 15 Jan 2022 18:57:28: 2000000 INFO @ Sat, 15 Jan 2022 18:57:33: 8000000 INFO @ Sat, 15 Jan 2022 18:57:34: 3000000 INFO @ Sat, 15 Jan 2022 18:57:40: 9000000 INFO @ Sat, 15 Jan 2022 18:57:40: 4000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 15 Jan 2022 18:57:45: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX10592380/SRX10592380.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX10592380/SRX10592380.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX10592380/SRX10592380.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX10592380/SRX10592380.bam'] # control file = None # effective genome size = 1.21e+07 # 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 @ Sat, 15 Jan 2022 18:57:45: #1 read tag files... INFO @ Sat, 15 Jan 2022 18:57:45: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 18:57:46: 5000000 INFO @ Sat, 15 Jan 2022 18:57:46: 10000000 INFO @ Sat, 15 Jan 2022 18:57:51: 1000000 INFO @ Sat, 15 Jan 2022 18:57:53: 6000000 INFO @ Sat, 15 Jan 2022 18:57:53: 11000000 INFO @ Sat, 15 Jan 2022 18:57:57: 2000000 INFO @ Sat, 15 Jan 2022 18:57:59: 7000000 INFO @ Sat, 15 Jan 2022 18:58:00: 12000000 INFO @ Sat, 15 Jan 2022 18:58:03: 3000000 INFO @ Sat, 15 Jan 2022 18:58:05: 8000000 INFO @ Sat, 15 Jan 2022 18:58:06: 13000000 INFO @ Sat, 15 Jan 2022 18:58:09: 4000000 INFO @ Sat, 15 Jan 2022 18:58:11: 9000000 INFO @ Sat, 15 Jan 2022 18:58:13: 14000000 INFO @ Sat, 15 Jan 2022 18:58:15: 5000000 INFO @ Sat, 15 Jan 2022 18:58:18: 10000000 INFO @ Sat, 15 Jan 2022 18:58:19: 15000000 INFO @ Sat, 15 Jan 2022 18:58:21: 6000000 INFO @ Sat, 15 Jan 2022 18:58:24: 11000000 INFO @ Sat, 15 Jan 2022 18:58:26: 16000000 INFO @ Sat, 15 Jan 2022 18:58:27: 7000000 INFO @ Sat, 15 Jan 2022 18:58:30: 12000000 INFO @ Sat, 15 Jan 2022 18:58:32: 17000000 INFO @ Sat, 15 Jan 2022 18:58:33: 8000000 INFO @ Sat, 15 Jan 2022 18:58:36: 13000000 INFO @ Sat, 15 Jan 2022 18:58:38: 18000000 INFO @ Sat, 15 Jan 2022 18:58:39: 9000000 INFO @ Sat, 15 Jan 2022 18:58:43: 14000000 INFO @ Sat, 15 Jan 2022 18:58:44: 19000000 INFO @ Sat, 15 Jan 2022 18:58:45: 10000000 INFO @ Sat, 15 Jan 2022 18:58:49: 15000000 INFO @ Sat, 15 Jan 2022 18:58:51: 20000000 INFO @ Sat, 15 Jan 2022 18:58:51: 11000000 INFO @ Sat, 15 Jan 2022 18:58:56: 16000000 INFO @ Sat, 15 Jan 2022 18:58:57: 21000000 INFO @ Sat, 15 Jan 2022 18:58:57: 12000000 INFO @ Sat, 15 Jan 2022 18:59:02: 17000000 INFO @ Sat, 15 Jan 2022 18:59:03: 13000000 INFO @ Sat, 15 Jan 2022 18:59:03: 22000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 18:59:08: 18000000 INFO @ Sat, 15 Jan 2022 18:59:09: 14000000 INFO @ Sat, 15 Jan 2022 18:59:10: 23000000 INFO @ Sat, 15 Jan 2022 18:59:15: 15000000 INFO @ Sat, 15 Jan 2022 18:59:15: 19000000 INFO @ Sat, 15 Jan 2022 18:59:16: 24000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 18:59:20: 16000000 INFO @ Sat, 15 Jan 2022 18:59:21: 20000000 INFO @ Sat, 15 Jan 2022 18:59:22: 25000000 INFO @ Sat, 15 Jan 2022 18:59:26: 17000000 INFO @ Sat, 15 Jan 2022 18:59:27: 21000000 INFO @ Sat, 15 Jan 2022 18:59:28: 26000000 INFO @ Sat, 15 Jan 2022 18:59:32: 18000000 INFO @ Sat, 15 Jan 2022 18:59:34: 22000000 INFO @ Sat, 15 Jan 2022 18:59:35: 27000000 INFO @ Sat, 15 Jan 2022 18:59:38: 19000000 INFO @ Sat, 15 Jan 2022 18:59:40: 23000000 INFO @ Sat, 15 Jan 2022 18:59:41: 28000000 INFO @ Sat, 15 Jan 2022 18:59:43: 20000000 INFO @ Sat, 15 Jan 2022 18:59:46: 24000000 INFO @ Sat, 15 Jan 2022 18:59:47: 29000000 INFO @ Sat, 15 Jan 2022 18:59:49: 21000000 INFO @ Sat, 15 Jan 2022 18:59:51: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 18:59:51: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 18:59:51: #1 total tags in treatment: 14556565 INFO @ Sat, 15 Jan 2022 18:59:51: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 18:59:51: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 15 Jan 2022 18:59:51: #1 tags after filtering in treatment: 9569044 INFO @ Sat, 15 Jan 2022 18:59:51: #1 Redundant rate of treatment: 0.34 INFO @ Sat, 15 Jan 2022 18:59:51: #1 finished! INFO @ Sat, 15 Jan 2022 18:59:51: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 18:59:51: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 18:59:51: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 18:59:51: Too few paired peaks (0) 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 @ Sat, 15 Jan 2022 18:59:51: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX10592380/SRX10592380.05_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/sacCer3/SRX10592380/SRX10592380.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10592380/SRX10592380.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10592380/SRX10592380.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 18:59:53: 25000000 INFO @ Sat, 15 Jan 2022 18:59:55: 22000000 INFO @ Sat, 15 Jan 2022 18:59:59: 26000000 INFO @ Sat, 15 Jan 2022 19:00:00: 23000000 INFO @ Sat, 15 Jan 2022 19:00:05: 27000000 INFO @ Sat, 15 Jan 2022 19:00:06: 24000000 INFO @ Sat, 15 Jan 2022 19:00:11: 28000000 INFO @ Sat, 15 Jan 2022 19:00:12: 25000000 INFO @ Sat, 15 Jan 2022 19:00:17: 29000000 INFO @ Sat, 15 Jan 2022 19:00:18: 26000000 INFO @ Sat, 15 Jan 2022 19:00:21: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 19:00:21: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 19:00:21: #1 total tags in treatment: 14556565 INFO @ Sat, 15 Jan 2022 19:00:21: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:00:21: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 15 Jan 2022 19:00:21: #1 tags after filtering in treatment: 9569044 INFO @ Sat, 15 Jan 2022 19:00:21: #1 Redundant rate of treatment: 0.34 INFO @ Sat, 15 Jan 2022 19:00:21: #1 finished! INFO @ Sat, 15 Jan 2022 19:00:21: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:00:21: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:00:22: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 19:00:22: Too few paired peaks (0) 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 @ Sat, 15 Jan 2022 19:00:22: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX10592380/SRX10592380.10_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/sacCer3/SRX10592380/SRX10592380.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10592380/SRX10592380.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10592380/SRX10592380.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 19:00:23: 27000000 INFO @ Sat, 15 Jan 2022 19:00:28: 28000000 INFO @ Sat, 15 Jan 2022 19:00:33: 29000000 INFO @ Sat, 15 Jan 2022 19:00:36: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 19:00:36: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 19:00:36: #1 total tags in treatment: 14556565 INFO @ Sat, 15 Jan 2022 19:00:36: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:00:36: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 15 Jan 2022 19:00:36: #1 tags after filtering in treatment: 9569044 INFO @ Sat, 15 Jan 2022 19:00:36: #1 Redundant rate of treatment: 0.34 INFO @ Sat, 15 Jan 2022 19:00:36: #1 finished! INFO @ Sat, 15 Jan 2022 19:00:36: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:00:36: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:00:37: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 19:00:37: Too few paired peaks (0) 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 @ Sat, 15 Jan 2022 19:00:37: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX10592380/SRX10592380.20_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/sacCer3/SRX10592380/SRX10592380.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10592380/SRX10592380.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10592380/SRX10592380.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling