Job ID = 7116856 SRX = SRX8639489 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-07-22T06:19:47 prefetch.2.10.7: 1) Downloading 'SRR12117053'... 2020-07-22T06:19:47 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T06:22:02 prefetch.2.10.7: HTTPS download succeed 2020-07-22T06:22:02 prefetch.2.10.7: 1) 'SRR12117053' was downloaded successfully 2020-07-22T06:22:02 prefetch.2.10.7: 'SRR12117053' has 0 unresolved dependencies Read 24165245 spots for SRR12117053/SRR12117053.sra Written 24165245 spots for SRR12117053/SRR12117053.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: 00:08:04 24165245 reads; of these: 24165245 (100.00%) were paired; of these: 12966871 (53.66%) aligned concordantly 0 times 10302311 (42.63%) aligned concordantly exactly 1 time 896063 (3.71%) aligned concordantly >1 times ---- 12966871 pairs aligned concordantly 0 times; of these: 90979 (0.70%) aligned discordantly 1 time ---- 12875892 pairs aligned 0 times concordantly or discordantly; of these: 25751784 mates make up the pairs; of these: 25565988 (99.28%) aligned 0 times 152322 (0.59%) aligned exactly 1 time 33474 (0.13%) aligned >1 times 47.10% overall alignment rate Time searching: 00:08:04 Overall time: 00:08:04 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 12 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] 117165 / 11276035 = 0.0104 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 @ Wed, 22 Jul 2020 15:36:53: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639489/SRX8639489.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639489/SRX8639489.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639489/SRX8639489.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639489/SRX8639489.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 @ Wed, 22 Jul 2020 15:36:53: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:36:53: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:36:58: 1000000 INFO @ Wed, 22 Jul 2020 15:37:03: 2000000 INFO @ Wed, 22 Jul 2020 15:37:08: 3000000 INFO @ Wed, 22 Jul 2020 15:37:13: 4000000 INFO @ Wed, 22 Jul 2020 15:37:18: 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 @ Wed, 22 Jul 2020 15:37:23: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639489/SRX8639489.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639489/SRX8639489.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639489/SRX8639489.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639489/SRX8639489.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 @ Wed, 22 Jul 2020 15:37:23: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:37:23: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:37:23: 6000000 INFO @ Wed, 22 Jul 2020 15:37:28: 1000000 INFO @ Wed, 22 Jul 2020 15:37:28: 7000000 INFO @ Wed, 22 Jul 2020 15:37:33: 2000000 INFO @ Wed, 22 Jul 2020 15:37:33: 8000000 INFO @ Wed, 22 Jul 2020 15:37:39: 9000000 INFO @ Wed, 22 Jul 2020 15:37:39: 3000000 INFO @ Wed, 22 Jul 2020 15:37:44: 10000000 INFO @ Wed, 22 Jul 2020 15:37:44: 4000000 INFO @ Wed, 22 Jul 2020 15:37:49: 11000000 INFO @ Wed, 22 Jul 2020 15:37:50: 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 @ Wed, 22 Jul 2020 15:37:53: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639489/SRX8639489.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639489/SRX8639489.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639489/SRX8639489.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639489/SRX8639489.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 @ Wed, 22 Jul 2020 15:37:53: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:37:53: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:37:54: 12000000 INFO @ Wed, 22 Jul 2020 15:37:55: 6000000 INFO @ Wed, 22 Jul 2020 15:37:58: 1000000 INFO @ Wed, 22 Jul 2020 15:37:59: 13000000 INFO @ Wed, 22 Jul 2020 15:38:01: 7000000 INFO @ Wed, 22 Jul 2020 15:38:04: 2000000 INFO @ Wed, 22 Jul 2020 15:38:04: 14000000 INFO @ Wed, 22 Jul 2020 15:38:06: 8000000 INFO @ Wed, 22 Jul 2020 15:38:09: 3000000 INFO @ Wed, 22 Jul 2020 15:38:09: 15000000 INFO @ Wed, 22 Jul 2020 15:38:12: 9000000 INFO @ Wed, 22 Jul 2020 15:38:14: 16000000 INFO @ Wed, 22 Jul 2020 15:38:15: 4000000 INFO @ Wed, 22 Jul 2020 15:38:17: 10000000 INFO @ Wed, 22 Jul 2020 15:38:19: 17000000 INFO @ Wed, 22 Jul 2020 15:38:20: 5000000 INFO @ Wed, 22 Jul 2020 15:38:23: 11000000 INFO @ Wed, 22 Jul 2020 15:38:25: 18000000 INFO @ Wed, 22 Jul 2020 15:38:26: 6000000 INFO @ Wed, 22 Jul 2020 15:38:28: 12000000 INFO @ Wed, 22 Jul 2020 15:38:30: 19000000 INFO @ Wed, 22 Jul 2020 15:38:31: 7000000 INFO @ Wed, 22 Jul 2020 15:38:34: 13000000 INFO @ Wed, 22 Jul 2020 15:38:35: 20000000 INFO @ Wed, 22 Jul 2020 15:38:36: 8000000 INFO @ Wed, 22 Jul 2020 15:38:39: 14000000 INFO @ Wed, 22 Jul 2020 15:38:40: 21000000 INFO @ Wed, 22 Jul 2020 15:38:42: 9000000 INFO @ Wed, 22 Jul 2020 15:38:45: 15000000 INFO @ Wed, 22 Jul 2020 15:38:45: 22000000 INFO @ Wed, 22 Jul 2020 15:38:47: 10000000 INFO @ Wed, 22 Jul 2020 15:38:48: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 15:38:48: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 15:38:48: #1 total tags in treatment: 11081280 INFO @ Wed, 22 Jul 2020 15:38:48: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:38:48: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Jul 2020 15:38:48: #1 tags after filtering in treatment: 7853181 INFO @ Wed, 22 Jul 2020 15:38:48: #1 Redundant rate of treatment: 0.29 INFO @ Wed, 22 Jul 2020 15:38:48: #1 finished! INFO @ Wed, 22 Jul 2020 15:38:48: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:38:48: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:38:48: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 15:38:48: 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 @ Wed, 22 Jul 2020 15:38:48: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639489/SRX8639489.05_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/sacCer3/SRX8639489/SRX8639489.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639489/SRX8639489.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639489/SRX8639489.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 15:38:50: 16000000 INFO @ Wed, 22 Jul 2020 15:38:53: 11000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 15:38:55: 17000000 INFO @ Wed, 22 Jul 2020 15:38:58: 12000000 INFO @ Wed, 22 Jul 2020 15:39:01: 18000000 INFO @ Wed, 22 Jul 2020 15:39:04: 13000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 15:39:06: 19000000 INFO @ Wed, 22 Jul 2020 15:39:09: 14000000 INFO @ Wed, 22 Jul 2020 15:39:12: 20000000 INFO @ Wed, 22 Jul 2020 15:39:14: 15000000 INFO @ Wed, 22 Jul 2020 15:39:17: 21000000 INFO @ Wed, 22 Jul 2020 15:39:20: 16000000 INFO @ Wed, 22 Jul 2020 15:39:22: 22000000 INFO @ Wed, 22 Jul 2020 15:39:25: 17000000 INFO @ Wed, 22 Jul 2020 15:39:25: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 15:39:25: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 15:39:25: #1 total tags in treatment: 11081280 INFO @ Wed, 22 Jul 2020 15:39:25: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:39:25: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Jul 2020 15:39:26: #1 tags after filtering in treatment: 7853181 INFO @ Wed, 22 Jul 2020 15:39:26: #1 Redundant rate of treatment: 0.29 INFO @ Wed, 22 Jul 2020 15:39:26: #1 finished! INFO @ Wed, 22 Jul 2020 15:39:26: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:39:26: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:39:26: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 15:39:26: 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 @ Wed, 22 Jul 2020 15:39:26: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639489/SRX8639489.10_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/SRX8639489/SRX8639489.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639489/SRX8639489.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639489/SRX8639489.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 15:39:30: 18000000 INFO @ Wed, 22 Jul 2020 15:39:36: 19000000 INFO @ Wed, 22 Jul 2020 15:39:41: 20000000 INFO @ Wed, 22 Jul 2020 15:39:46: 21000000 INFO @ Wed, 22 Jul 2020 15:39:51: 22000000 INFO @ Wed, 22 Jul 2020 15:39:54: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 15:39:54: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 15:39:54: #1 total tags in treatment: 11081280 INFO @ Wed, 22 Jul 2020 15:39:54: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:39:54: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Jul 2020 15:39:54: #1 tags after filtering in treatment: 7853181 INFO @ Wed, 22 Jul 2020 15:39:54: #1 Redundant rate of treatment: 0.29 INFO @ Wed, 22 Jul 2020 15:39:54: #1 finished! INFO @ Wed, 22 Jul 2020 15:39:54: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:39:54: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:39:55: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 15:39:55: 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 @ Wed, 22 Jul 2020 15:39:55: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639489/SRX8639489.20_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/SRX8639489/SRX8639489.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639489/SRX8639489.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639489/SRX8639489.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling