Job ID = 14520202 SRX = SRX7919606 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 9634410 spots for SRR11315223/SRR11315223.sra Written 9634410 spots for SRR11315223/SRR11315223.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: 00:04:50 9634410 reads; of these: 9634410 (100.00%) were paired; of these: 1827993 (18.97%) aligned concordantly 0 times 7170481 (74.43%) aligned concordantly exactly 1 time 635936 (6.60%) aligned concordantly >1 times ---- 1827993 pairs aligned concordantly 0 times; of these: 160648 (8.79%) aligned discordantly 1 time ---- 1667345 pairs aligned 0 times concordantly or discordantly; of these: 3334690 mates make up the pairs; of these: 2712008 (81.33%) aligned 0 times 539680 (16.18%) aligned exactly 1 time 83002 (2.49%) aligned >1 times 85.93% overall alignment rate Time searching: 00:04:50 Overall time: 00:04:50 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 8 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] 1227791 / 7829610 = 0.1568 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 18:46:44: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7919606/SRX7919606.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7919606/SRX7919606.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7919606/SRX7919606.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7919606/SRX7919606.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 18:46:44: #1 read tag files... INFO @ Sat, 15 Jan 2022 18:46:44: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 18:46:49: 1000000 INFO @ Sat, 15 Jan 2022 18:46:54: 2000000 INFO @ Sat, 15 Jan 2022 18:47:00: 3000000 INFO @ Sat, 15 Jan 2022 18:47:06: 4000000 INFO @ Sat, 15 Jan 2022 18:47:11: 5000000 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 18:47:14: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7919606/SRX7919606.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7919606/SRX7919606.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7919606/SRX7919606.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7919606/SRX7919606.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 18:47:14: #1 read tag files... INFO @ Sat, 15 Jan 2022 18:47:14: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 18:47:17: 6000000 INFO @ Sat, 15 Jan 2022 18:47:20: 1000000 INFO @ Sat, 15 Jan 2022 18:47:23: 7000000 INFO @ Sat, 15 Jan 2022 18:47:25: 2000000 INFO @ Sat, 15 Jan 2022 18:47:29: 8000000 INFO @ Sat, 15 Jan 2022 18:47:32: 3000000 INFO @ Sat, 15 Jan 2022 18:47:35: 9000000 INFO @ Sat, 15 Jan 2022 18:47:38: 4000000 INFO @ Sat, 15 Jan 2022 18:47:41: 10000000 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 18:47:44: 5000000 INFO @ Sat, 15 Jan 2022 18:47:44: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7919606/SRX7919606.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7919606/SRX7919606.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7919606/SRX7919606.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7919606/SRX7919606.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 18:47:44: #1 read tag files... INFO @ Sat, 15 Jan 2022 18:47:44: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 18:47:47: 11000000 INFO @ Sat, 15 Jan 2022 18:47:50: 6000000 INFO @ Sat, 15 Jan 2022 18:47:50: 1000000 INFO @ Sat, 15 Jan 2022 18:47:53: 12000000 INFO @ Sat, 15 Jan 2022 18:47:56: 2000000 INFO @ Sat, 15 Jan 2022 18:47:56: 7000000 INFO @ Sat, 15 Jan 2022 18:48:00: 13000000 INFO @ Sat, 15 Jan 2022 18:48:01: 3000000 INFO @ Sat, 15 Jan 2022 18:48:03: 8000000 INFO @ Sat, 15 Jan 2022 18:48:06: 14000000 INFO @ Sat, 15 Jan 2022 18:48:06: #1 tag size is determined as 51 bps INFO @ Sat, 15 Jan 2022 18:48:06: #1 tag size = 51 INFO @ Sat, 15 Jan 2022 18:48:06: #1 total tags in treatment: 6580934 INFO @ Sat, 15 Jan 2022 18:48:06: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 18:48:06: #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 18:48:06: #1 tags after filtering in treatment: 3945618 INFO @ Sat, 15 Jan 2022 18:48:06: #1 Redundant rate of treatment: 0.40 INFO @ Sat, 15 Jan 2022 18:48:06: #1 finished! INFO @ Sat, 15 Jan 2022 18:48:06: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 18:48:06: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 18:48:07: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 18:48:07: 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 18:48:07: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7919606/SRX7919606.05_peaks.narrowPeak: No such file or directory INFO @ Sat, 15 Jan 2022 18:48:07: 4000000 pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7919606/SRX7919606.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7919606/SRX7919606.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7919606/SRX7919606.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 18:48:09: 9000000 INFO @ Sat, 15 Jan 2022 18:48:12: 5000000 INFO @ Sat, 15 Jan 2022 18:48:15: 10000000 INFO @ Sat, 15 Jan 2022 18:48:18: 6000000 INFO @ Sat, 15 Jan 2022 18:48:22: 11000000 INFO @ Sat, 15 Jan 2022 18:48:23: 7000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 18:48:28: 12000000 INFO @ Sat, 15 Jan 2022 18:48:29: 8000000 INFO @ Sat, 15 Jan 2022 18:48:34: 13000000 INFO @ Sat, 15 Jan 2022 18:48:34: 9000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 18:48:40: 10000000 INFO @ Sat, 15 Jan 2022 18:48:40: 14000000 INFO @ Sat, 15 Jan 2022 18:48:41: #1 tag size is determined as 51 bps INFO @ Sat, 15 Jan 2022 18:48:41: #1 tag size = 51 INFO @ Sat, 15 Jan 2022 18:48:41: #1 total tags in treatment: 6580934 INFO @ Sat, 15 Jan 2022 18:48:41: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 18:48:41: #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 18:48:41: #1 tags after filtering in treatment: 3945618 INFO @ Sat, 15 Jan 2022 18:48:41: #1 Redundant rate of treatment: 0.40 INFO @ Sat, 15 Jan 2022 18:48:41: #1 finished! INFO @ Sat, 15 Jan 2022 18:48:41: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 18:48:41: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 18:48:41: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 18:48:41: 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 18:48:41: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7919606/SRX7919606.10_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/sacCer3/SRX7919606/SRX7919606.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7919606/SRX7919606.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7919606/SRX7919606.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 18:48:45: 11000000 INFO @ Sat, 15 Jan 2022 18:48:50: 12000000 INFO @ Sat, 15 Jan 2022 18:48:55: 13000000 INFO @ Sat, 15 Jan 2022 18:49:00: 14000000 INFO @ Sat, 15 Jan 2022 18:49:01: #1 tag size is determined as 51 bps INFO @ Sat, 15 Jan 2022 18:49:01: #1 tag size = 51 INFO @ Sat, 15 Jan 2022 18:49:01: #1 total tags in treatment: 6580934 INFO @ Sat, 15 Jan 2022 18:49:01: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 18:49:01: #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 18:49:01: #1 tags after filtering in treatment: 3945618 INFO @ Sat, 15 Jan 2022 18:49:01: #1 Redundant rate of treatment: 0.40 INFO @ Sat, 15 Jan 2022 18:49:01: #1 finished! INFO @ Sat, 15 Jan 2022 18:49:01: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 18:49:01: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 18:49:01: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 18:49:01: 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 18:49:01: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7919606/SRX7919606.20_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/SRX7919606/SRX7919606.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7919606/SRX7919606.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7919606/SRX7919606.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling