Job ID = 7116356 SRX = SRX8639473 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-07-22T06:15:18 prefetch.2.10.7: 1) Downloading 'SRR12117037'... 2020-07-22T06:15:18 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T06:17:47 prefetch.2.10.7: HTTPS download succeed 2020-07-22T06:17:47 prefetch.2.10.7: 1) 'SRR12117037' was downloaded successfully 2020-07-22T06:17:47 prefetch.2.10.7: 'SRR12117037' has 0 unresolved dependencies Read 24712033 spots for SRR12117037/SRR12117037.sra Written 24712033 spots for SRR12117037/SRR12117037.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: 00:12:23 24712033 reads; of these: 24712033 (100.00%) were paired; of these: 5391960 (21.82%) aligned concordantly 0 times 17117402 (69.27%) aligned concordantly exactly 1 time 2202671 (8.91%) aligned concordantly >1 times ---- 5391960 pairs aligned concordantly 0 times; of these: 113711 (2.11%) aligned discordantly 1 time ---- 5278249 pairs aligned 0 times concordantly or discordantly; of these: 10556498 mates make up the pairs; of these: 10263190 (97.22%) aligned 0 times 223963 (2.12%) aligned exactly 1 time 69345 (0.66%) aligned >1 times 79.23% overall alignment rate Time searching: 00:12:23 Overall time: 00:12:24 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 16 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] 352537 / 19407643 = 0.0182 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 15:40:17: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639473/SRX8639473.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639473/SRX8639473.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639473/SRX8639473.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639473/SRX8639473.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 15:40:17: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:40:17: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:40:23: 1000000 INFO @ Wed, 22 Jul 2020 15:40:29: 2000000 INFO @ Wed, 22 Jul 2020 15:40:34: 3000000 INFO @ Wed, 22 Jul 2020 15:40:39: 4000000 INFO @ Wed, 22 Jul 2020 15:40:45: 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 15:40:47: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639473/SRX8639473.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639473/SRX8639473.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639473/SRX8639473.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639473/SRX8639473.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 15:40:47: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:40:47: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:40:51: 6000000 INFO @ Wed, 22 Jul 2020 15:40:54: 1000000 INFO @ Wed, 22 Jul 2020 15:40:57: 7000000 INFO @ Wed, 22 Jul 2020 15:41:00: 2000000 INFO @ Wed, 22 Jul 2020 15:41:03: 8000000 INFO @ Wed, 22 Jul 2020 15:41:06: 3000000 INFO @ Wed, 22 Jul 2020 15:41:09: 9000000 INFO @ Wed, 22 Jul 2020 15:41:12: 4000000 INFO @ Wed, 22 Jul 2020 15:41:15: 10000000 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 15:41:17: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639473/SRX8639473.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639473/SRX8639473.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639473/SRX8639473.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639473/SRX8639473.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 15:41:17: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:41:17: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:41:19: 5000000 INFO @ Wed, 22 Jul 2020 15:41:21: 11000000 INFO @ Wed, 22 Jul 2020 15:41:24: 1000000 INFO @ Wed, 22 Jul 2020 15:41:25: 6000000 INFO @ Wed, 22 Jul 2020 15:41:28: 12000000 INFO @ Wed, 22 Jul 2020 15:41:30: 2000000 INFO @ Wed, 22 Jul 2020 15:41:32: 7000000 INFO @ Wed, 22 Jul 2020 15:41:34: 13000000 INFO @ Wed, 22 Jul 2020 15:41:36: 3000000 INFO @ Wed, 22 Jul 2020 15:41:38: 8000000 INFO @ Wed, 22 Jul 2020 15:41:40: 14000000 INFO @ Wed, 22 Jul 2020 15:41:43: 4000000 INFO @ Wed, 22 Jul 2020 15:41:44: 9000000 INFO @ Wed, 22 Jul 2020 15:41:46: 15000000 INFO @ Wed, 22 Jul 2020 15:41:49: 5000000 INFO @ Wed, 22 Jul 2020 15:41:51: 10000000 INFO @ Wed, 22 Jul 2020 15:41:53: 16000000 INFO @ Wed, 22 Jul 2020 15:41:55: 6000000 INFO @ Wed, 22 Jul 2020 15:41:57: 11000000 INFO @ Wed, 22 Jul 2020 15:41:59: 17000000 INFO @ Wed, 22 Jul 2020 15:42:01: 7000000 INFO @ Wed, 22 Jul 2020 15:42:04: 12000000 INFO @ Wed, 22 Jul 2020 15:42:05: 18000000 INFO @ Wed, 22 Jul 2020 15:42:08: 8000000 INFO @ Wed, 22 Jul 2020 15:42:10: 13000000 INFO @ Wed, 22 Jul 2020 15:42:11: 19000000 INFO @ Wed, 22 Jul 2020 15:42:14: 9000000 INFO @ Wed, 22 Jul 2020 15:42:16: 14000000 INFO @ Wed, 22 Jul 2020 15:42:18: 20000000 INFO @ Wed, 22 Jul 2020 15:42:20: 10000000 INFO @ Wed, 22 Jul 2020 15:42:23: 15000000 INFO @ Wed, 22 Jul 2020 15:42:24: 21000000 INFO @ Wed, 22 Jul 2020 15:42:27: 11000000 INFO @ Wed, 22 Jul 2020 15:42:29: 16000000 INFO @ Wed, 22 Jul 2020 15:42:30: 22000000 INFO @ Wed, 22 Jul 2020 15:42:33: 12000000 INFO @ Wed, 22 Jul 2020 15:42:36: 17000000 INFO @ Wed, 22 Jul 2020 15:42:36: 23000000 INFO @ Wed, 22 Jul 2020 15:42:39: 13000000 INFO @ Wed, 22 Jul 2020 15:42:42: 24000000 INFO @ Wed, 22 Jul 2020 15:42:42: 18000000 INFO @ Wed, 22 Jul 2020 15:42:45: 14000000 INFO @ Wed, 22 Jul 2020 15:42:48: 25000000 INFO @ Wed, 22 Jul 2020 15:42:48: 19000000 INFO @ Wed, 22 Jul 2020 15:42:52: 15000000 INFO @ Wed, 22 Jul 2020 15:42:54: 26000000 INFO @ Wed, 22 Jul 2020 15:42:55: 20000000 INFO @ Wed, 22 Jul 2020 15:42:58: 16000000 INFO @ Wed, 22 Jul 2020 15:43:00: 27000000 INFO @ Wed, 22 Jul 2020 15:43:01: 21000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 15:43:04: 17000000 INFO @ Wed, 22 Jul 2020 15:43:06: 28000000 INFO @ Wed, 22 Jul 2020 15:43:07: 22000000 INFO @ Wed, 22 Jul 2020 15:43:10: 18000000 INFO @ Wed, 22 Jul 2020 15:43:13: 29000000 INFO @ Wed, 22 Jul 2020 15:43:14: 23000000 INFO @ Wed, 22 Jul 2020 15:43:17: 19000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 15:43:19: 30000000 INFO @ Wed, 22 Jul 2020 15:43:20: 24000000 INFO @ Wed, 22 Jul 2020 15:43:23: 20000000 INFO @ Wed, 22 Jul 2020 15:43:25: 31000000 INFO @ Wed, 22 Jul 2020 15:43:26: 25000000 INFO @ Wed, 22 Jul 2020 15:43:29: 21000000 INFO @ Wed, 22 Jul 2020 15:43:31: 32000000 INFO @ Wed, 22 Jul 2020 15:43:32: 26000000 INFO @ Wed, 22 Jul 2020 15:43:35: 22000000 INFO @ Wed, 22 Jul 2020 15:43:37: 33000000 INFO @ Wed, 22 Jul 2020 15:43:39: 27000000 INFO @ Wed, 22 Jul 2020 15:43:41: 23000000 INFO @ Wed, 22 Jul 2020 15:43:43: 34000000 INFO @ Wed, 22 Jul 2020 15:43:45: 28000000 INFO @ Wed, 22 Jul 2020 15:43:48: 24000000 INFO @ Wed, 22 Jul 2020 15:43:49: 35000000 INFO @ Wed, 22 Jul 2020 15:43:51: 29000000 INFO @ Wed, 22 Jul 2020 15:43:54: 25000000 INFO @ Wed, 22 Jul 2020 15:43:55: 36000000 INFO @ Wed, 22 Jul 2020 15:43:57: 30000000 INFO @ Wed, 22 Jul 2020 15:44:00: 26000000 INFO @ Wed, 22 Jul 2020 15:44:01: 37000000 INFO @ Wed, 22 Jul 2020 15:44:04: 31000000 INFO @ Wed, 22 Jul 2020 15:44:06: 27000000 INFO @ Wed, 22 Jul 2020 15:44:08: 38000000 INFO @ Wed, 22 Jul 2020 15:44:10: 32000000 INFO @ Wed, 22 Jul 2020 15:44:10: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 15:44:10: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 15:44:10: #1 total tags in treatment: 18967664 INFO @ Wed, 22 Jul 2020 15:44:10: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:44:10: #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 15:44:11: #1 tags after filtering in treatment: 12322304 INFO @ Wed, 22 Jul 2020 15:44:11: #1 Redundant rate of treatment: 0.35 INFO @ Wed, 22 Jul 2020 15:44:11: #1 finished! INFO @ Wed, 22 Jul 2020 15:44:11: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:44:11: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:44:11: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 15:44:11: 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 15:44:11: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639473/SRX8639473.05_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/SRX8639473/SRX8639473.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639473/SRX8639473.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639473/SRX8639473.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 15:44:12: 28000000 INFO @ Wed, 22 Jul 2020 15:44:16: 33000000 INFO @ Wed, 22 Jul 2020 15:44:18: 29000000 INFO @ Wed, 22 Jul 2020 15:44:22: 34000000 INFO @ Wed, 22 Jul 2020 15:44:24: 30000000 INFO @ Wed, 22 Jul 2020 15:44:28: 35000000 INFO @ Wed, 22 Jul 2020 15:44:31: 31000000 INFO @ Wed, 22 Jul 2020 15:44:34: 36000000 INFO @ Wed, 22 Jul 2020 15:44:37: 32000000 INFO @ Wed, 22 Jul 2020 15:44:41: 37000000 INFO @ Wed, 22 Jul 2020 15:44:43: 33000000 INFO @ Wed, 22 Jul 2020 15:44:47: 38000000 INFO @ Wed, 22 Jul 2020 15:44:49: 34000000 INFO @ Wed, 22 Jul 2020 15:44:49: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 15:44:49: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 15:44:49: #1 total tags in treatment: 18967664 INFO @ Wed, 22 Jul 2020 15:44:49: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:44:49: #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 15:44:50: #1 tags after filtering in treatment: 12322304 INFO @ Wed, 22 Jul 2020 15:44:50: #1 Redundant rate of treatment: 0.35 INFO @ Wed, 22 Jul 2020 15:44:50: #1 finished! INFO @ Wed, 22 Jul 2020 15:44:50: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:44:50: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:44:51: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 15:44:51: 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 @ Wed, 22 Jul 2020 15:44:51: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639473/SRX8639473.10_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/SRX8639473/SRX8639473.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639473/SRX8639473.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639473/SRX8639473.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 15:44:54: 35000000 INFO @ Wed, 22 Jul 2020 15:45:00: 36000000 INFO @ Wed, 22 Jul 2020 15:45:05: 37000000 INFO @ Wed, 22 Jul 2020 15:45:11: 38000000 INFO @ Wed, 22 Jul 2020 15:45:13: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 15:45:13: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 15:45:13: #1 total tags in treatment: 18967664 INFO @ Wed, 22 Jul 2020 15:45:13: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:45:13: #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 15:45:14: #1 tags after filtering in treatment: 12322304 INFO @ Wed, 22 Jul 2020 15:45:14: #1 Redundant rate of treatment: 0.35 INFO @ Wed, 22 Jul 2020 15:45:14: #1 finished! INFO @ Wed, 22 Jul 2020 15:45:14: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:45:14: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:45:14: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 15:45:14: 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 15:45:14: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639473/SRX8639473.20_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/SRX8639473/SRX8639473.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639473/SRX8639473.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639473/SRX8639473.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling