Job ID = 7116124 SRX = SRX8639468 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-07-22T06:14:32 prefetch.2.10.7: 1) Downloading 'SRR12116968'... 2020-07-22T06:14:32 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T06:16:12 prefetch.2.10.7: HTTPS download succeed 2020-07-22T06:16:12 prefetch.2.10.7: 1) 'SRR12116968' was downloaded successfully 2020-07-22T06:16:12 prefetch.2.10.7: 'SRR12116968' has 0 unresolved dependencies Read 21619071 spots for SRR12116968/SRR12116968.sra Written 21619071 spots for SRR12116968/SRR12116968.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: 00:10:32 21619071 reads; of these: 21619071 (100.00%) were paired; of these: 3632214 (16.80%) aligned concordantly 0 times 15784786 (73.01%) aligned concordantly exactly 1 time 2202071 (10.19%) aligned concordantly >1 times ---- 3632214 pairs aligned concordantly 0 times; of these: 622001 (17.12%) aligned discordantly 1 time ---- 3010213 pairs aligned 0 times concordantly or discordantly; of these: 6020426 mates make up the pairs; of these: 5549085 (92.17%) aligned 0 times 181341 (3.01%) aligned exactly 1 time 290000 (4.82%) aligned >1 times 87.17% overall alignment rate Time searching: 00:10:32 Overall time: 00:10:32 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] 317582 / 18549872 = 0.0171 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 15:36:17: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639468/SRX8639468.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639468/SRX8639468.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639468/SRX8639468.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639468/SRX8639468.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 15:36:17: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:36:17: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:36:22: 1000000 INFO @ Wed, 22 Jul 2020 15:36:26: 2000000 INFO @ Wed, 22 Jul 2020 15:36:31: 3000000 INFO @ Wed, 22 Jul 2020 15:36:35: 4000000 INFO @ Wed, 22 Jul 2020 15:36:40: 5000000 INFO @ Wed, 22 Jul 2020 15:36:45: 6000000 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 15:36:47: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639468/SRX8639468.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639468/SRX8639468.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639468/SRX8639468.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639468/SRX8639468.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 15:36:47: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:36:47: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:36:50: 7000000 INFO @ Wed, 22 Jul 2020 15:36:52: 1000000 INFO @ Wed, 22 Jul 2020 15:36:55: 8000000 INFO @ Wed, 22 Jul 2020 15:36:57: 2000000 INFO @ Wed, 22 Jul 2020 15:37:00: 9000000 INFO @ Wed, 22 Jul 2020 15:37:02: 3000000 INFO @ Wed, 22 Jul 2020 15:37:05: 10000000 INFO @ Wed, 22 Jul 2020 15:37:07: 4000000 INFO @ Wed, 22 Jul 2020 15:37:10: 11000000 INFO @ Wed, 22 Jul 2020 15:37:12: 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 15:37:15: 12000000 INFO @ Wed, 22 Jul 2020 15:37:17: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639468/SRX8639468.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639468/SRX8639468.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639468/SRX8639468.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639468/SRX8639468.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 15:37:17: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:37:17: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:37:17: 6000000 INFO @ Wed, 22 Jul 2020 15:37:20: 13000000 INFO @ Wed, 22 Jul 2020 15:37:22: 1000000 INFO @ Wed, 22 Jul 2020 15:37:22: 7000000 INFO @ Wed, 22 Jul 2020 15:37:25: 14000000 INFO @ Wed, 22 Jul 2020 15:37:27: 2000000 INFO @ Wed, 22 Jul 2020 15:37:27: 8000000 INFO @ Wed, 22 Jul 2020 15:37:30: 15000000 INFO @ Wed, 22 Jul 2020 15:37:32: 3000000 INFO @ Wed, 22 Jul 2020 15:37:32: 9000000 INFO @ Wed, 22 Jul 2020 15:37:35: 16000000 INFO @ Wed, 22 Jul 2020 15:37:36: 4000000 INFO @ Wed, 22 Jul 2020 15:37:37: 10000000 INFO @ Wed, 22 Jul 2020 15:37:40: 17000000 INFO @ Wed, 22 Jul 2020 15:37:41: 5000000 INFO @ Wed, 22 Jul 2020 15:37:42: 11000000 INFO @ Wed, 22 Jul 2020 15:37:45: 18000000 INFO @ Wed, 22 Jul 2020 15:37:46: 6000000 INFO @ Wed, 22 Jul 2020 15:37:47: 12000000 INFO @ Wed, 22 Jul 2020 15:37:50: 19000000 INFO @ Wed, 22 Jul 2020 15:37:52: 7000000 INFO @ Wed, 22 Jul 2020 15:37:52: 13000000 INFO @ Wed, 22 Jul 2020 15:37:55: 20000000 INFO @ Wed, 22 Jul 2020 15:37:56: 8000000 INFO @ Wed, 22 Jul 2020 15:37:57: 14000000 INFO @ Wed, 22 Jul 2020 15:38:00: 21000000 INFO @ Wed, 22 Jul 2020 15:38:01: 9000000 INFO @ Wed, 22 Jul 2020 15:38:02: 15000000 INFO @ Wed, 22 Jul 2020 15:38:05: 22000000 INFO @ Wed, 22 Jul 2020 15:38:06: 10000000 INFO @ Wed, 22 Jul 2020 15:38:07: 16000000 INFO @ Wed, 22 Jul 2020 15:38:10: 23000000 INFO @ Wed, 22 Jul 2020 15:38:11: 11000000 INFO @ Wed, 22 Jul 2020 15:38:12: 17000000 INFO @ Wed, 22 Jul 2020 15:38:15: 24000000 INFO @ Wed, 22 Jul 2020 15:38:16: 12000000 INFO @ Wed, 22 Jul 2020 15:38:17: 18000000 INFO @ Wed, 22 Jul 2020 15:38:20: 25000000 INFO @ Wed, 22 Jul 2020 15:38:21: 13000000 INFO @ Wed, 22 Jul 2020 15:38:22: 19000000 INFO @ Wed, 22 Jul 2020 15:38:25: 26000000 INFO @ Wed, 22 Jul 2020 15:38:26: 14000000 INFO @ Wed, 22 Jul 2020 15:38:27: 20000000 INFO @ Wed, 22 Jul 2020 15:38:30: 27000000 INFO @ Wed, 22 Jul 2020 15:38:31: 15000000 INFO @ Wed, 22 Jul 2020 15:38:32: 21000000 INFO @ Wed, 22 Jul 2020 15:38:35: 28000000 INFO @ Wed, 22 Jul 2020 15:38:36: 16000000 INFO @ Wed, 22 Jul 2020 15:38:36: 22000000 INFO @ Wed, 22 Jul 2020 15:38:40: 29000000 INFO @ Wed, 22 Jul 2020 15:38:41: 17000000 INFO @ Wed, 22 Jul 2020 15:38:42: 23000000 INFO @ Wed, 22 Jul 2020 15:38:45: 30000000 INFO @ Wed, 22 Jul 2020 15:38:46: 18000000 INFO @ Wed, 22 Jul 2020 15:38:47: 24000000 INFO @ Wed, 22 Jul 2020 15:38:50: 31000000 INFO @ Wed, 22 Jul 2020 15:38:51: 19000000 INFO @ Wed, 22 Jul 2020 15:38:52: 25000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 15:38:55: 32000000 INFO @ Wed, 22 Jul 2020 15:38:56: 20000000 INFO @ Wed, 22 Jul 2020 15:38:57: 26000000 INFO @ Wed, 22 Jul 2020 15:39:00: 33000000 INFO @ Wed, 22 Jul 2020 15:39:01: 21000000 INFO @ Wed, 22 Jul 2020 15:39:02: 27000000 INFO @ Wed, 22 Jul 2020 15:39:05: 34000000 INFO @ Wed, 22 Jul 2020 15:39:06: 22000000 INFO @ Wed, 22 Jul 2020 15:39:07: 28000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 15:39:10: 35000000 INFO @ Wed, 22 Jul 2020 15:39:11: 23000000 INFO @ Wed, 22 Jul 2020 15:39:12: 29000000 INFO @ Wed, 22 Jul 2020 15:39:15: 36000000 INFO @ Wed, 22 Jul 2020 15:39:16: 24000000 INFO @ Wed, 22 Jul 2020 15:39:17: 30000000 INFO @ Wed, 22 Jul 2020 15:39:20: 37000000 INFO @ Wed, 22 Jul 2020 15:39:20: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 15:39:20: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 15:39:20: #1 total tags in treatment: 17672881 INFO @ Wed, 22 Jul 2020 15:39:20: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:39:20: #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 15:39:20: #1 tags after filtering in treatment: 11663295 INFO @ Wed, 22 Jul 2020 15:39:20: #1 Redundant rate of treatment: 0.34 INFO @ Wed, 22 Jul 2020 15:39:20: #1 finished! INFO @ Wed, 22 Jul 2020 15:39:20: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:39:20: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:39:21: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 15:39:21: 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 15:39:21: Process for pairing-model is terminated! INFO @ Wed, 22 Jul 2020 15:39:21: 25000000 cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639468/SRX8639468.05_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/SRX8639468/SRX8639468.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639468/SRX8639468.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639468/SRX8639468.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 15:39:23: 31000000 INFO @ Wed, 22 Jul 2020 15:39:26: 26000000 INFO @ Wed, 22 Jul 2020 15:39:28: 32000000 INFO @ Wed, 22 Jul 2020 15:39:31: 27000000 INFO @ Wed, 22 Jul 2020 15:39:33: 33000000 INFO @ Wed, 22 Jul 2020 15:39:36: 28000000 INFO @ Wed, 22 Jul 2020 15:39:38: 34000000 INFO @ Wed, 22 Jul 2020 15:39:41: 29000000 INFO @ Wed, 22 Jul 2020 15:39:43: 35000000 INFO @ Wed, 22 Jul 2020 15:39:46: 30000000 INFO @ Wed, 22 Jul 2020 15:39:48: 36000000 INFO @ Wed, 22 Jul 2020 15:39:51: 31000000 INFO @ Wed, 22 Jul 2020 15:39:53: 37000000 INFO @ Wed, 22 Jul 2020 15:39:53: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 15:39:53: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 15:39:53: #1 total tags in treatment: 17672881 INFO @ Wed, 22 Jul 2020 15:39:53: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:39:53: #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 15:39:53: #1 tags after filtering in treatment: 11663295 INFO @ Wed, 22 Jul 2020 15:39:53: #1 Redundant rate of treatment: 0.34 INFO @ Wed, 22 Jul 2020 15:39:53: #1 finished! INFO @ Wed, 22 Jul 2020 15:39:53: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:39:53: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:39:54: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 15:39:54: 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 15:39:54: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639468/SRX8639468.10_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/SRX8639468/SRX8639468.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639468/SRX8639468.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639468/SRX8639468.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 15:39:56: 32000000 INFO @ Wed, 22 Jul 2020 15:40:00: 33000000 INFO @ Wed, 22 Jul 2020 15:40:05: 34000000 INFO @ Wed, 22 Jul 2020 15:40:10: 35000000 INFO @ Wed, 22 Jul 2020 15:40:15: 36000000 INFO @ Wed, 22 Jul 2020 15:40:20: 37000000 INFO @ Wed, 22 Jul 2020 15:40:20: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 15:40:20: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 15:40:20: #1 total tags in treatment: 17672881 INFO @ Wed, 22 Jul 2020 15:40:20: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:40:20: #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 15:40:20: #1 tags after filtering in treatment: 11663295 INFO @ Wed, 22 Jul 2020 15:40:20: #1 Redundant rate of treatment: 0.34 INFO @ Wed, 22 Jul 2020 15:40:20: #1 finished! INFO @ Wed, 22 Jul 2020 15:40:20: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:40:20: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:40:21: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 15:40:21: 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 15:40:21: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639468/SRX8639468.20_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/SRX8639468/SRX8639468.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639468/SRX8639468.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639468/SRX8639468.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling