Job ID = 7112905 SRX = SRX8357696 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-07-22T05:24:59 prefetch.2.10.7: 1) Downloading 'SRR11806284'... 2020-07-22T05:24:59 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T05:26:59 prefetch.2.10.7: HTTPS download succeed 2020-07-22T05:26:59 prefetch.2.10.7: 1) 'SRR11806284' was downloaded successfully 2020-07-22T05:26:59 prefetch.2.10.7: 'SRR11806284' has 0 unresolved dependencies Read 39038223 spots for SRR11806284/SRR11806284.sra Written 39038223 spots for SRR11806284/SRR11806284.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: 00:20:38 39038223 reads; of these: 39038223 (100.00%) were paired; of these: 1521028 (3.90%) aligned concordantly 0 times 32926047 (84.34%) aligned concordantly exactly 1 time 4591148 (11.76%) aligned concordantly >1 times ---- 1521028 pairs aligned concordantly 0 times; of these: 175006 (11.51%) aligned discordantly 1 time ---- 1346022 pairs aligned 0 times concordantly or discordantly; of these: 2692044 mates make up the pairs; of these: 2300580 (85.46%) aligned 0 times 186767 (6.94%) aligned exactly 1 time 204697 (7.60%) aligned >1 times 97.05% overall alignment rate Time searching: 00:20:38 Overall time: 00:20:38 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 32 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] 14270862 / 37617392 = 0.3794 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 15:02:40: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8357696/SRX8357696.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8357696/SRX8357696.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8357696/SRX8357696.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8357696/SRX8357696.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 15:02:40: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:02:40: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:02:45: 1000000 INFO @ Wed, 22 Jul 2020 15:02:50: 2000000 INFO @ Wed, 22 Jul 2020 15:02:55: 3000000 INFO @ Wed, 22 Jul 2020 15:03:00: 4000000 INFO @ Wed, 22 Jul 2020 15:03:05: 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 15:03:09: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8357696/SRX8357696.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8357696/SRX8357696.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8357696/SRX8357696.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8357696/SRX8357696.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 15:03:09: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:03:09: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:03:11: 6000000 INFO @ Wed, 22 Jul 2020 15:03:15: 1000000 INFO @ Wed, 22 Jul 2020 15:03:17: 7000000 INFO @ Wed, 22 Jul 2020 15:03:21: 2000000 INFO @ Wed, 22 Jul 2020 15:03:23: 8000000 INFO @ Wed, 22 Jul 2020 15:03:27: 3000000 INFO @ Wed, 22 Jul 2020 15:03:29: 9000000 INFO @ Wed, 22 Jul 2020 15:03:33: 4000000 INFO @ Wed, 22 Jul 2020 15:03:35: 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 15:03:39: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8357696/SRX8357696.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8357696/SRX8357696.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8357696/SRX8357696.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8357696/SRX8357696.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 15:03:39: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:03:39: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:03:39: 5000000 INFO @ Wed, 22 Jul 2020 15:03:41: 11000000 INFO @ Wed, 22 Jul 2020 15:03:45: 1000000 INFO @ Wed, 22 Jul 2020 15:03:45: 6000000 INFO @ Wed, 22 Jul 2020 15:03:47: 12000000 INFO @ Wed, 22 Jul 2020 15:03:51: 2000000 INFO @ Wed, 22 Jul 2020 15:03:51: 7000000 INFO @ Wed, 22 Jul 2020 15:03:53: 13000000 INFO @ Wed, 22 Jul 2020 15:03:57: 8000000 INFO @ Wed, 22 Jul 2020 15:03:57: 3000000 INFO @ Wed, 22 Jul 2020 15:03:59: 14000000 INFO @ Wed, 22 Jul 2020 15:04:03: 4000000 INFO @ Wed, 22 Jul 2020 15:04:03: 9000000 INFO @ Wed, 22 Jul 2020 15:04:05: 15000000 INFO @ Wed, 22 Jul 2020 15:04:09: 10000000 INFO @ Wed, 22 Jul 2020 15:04:09: 5000000 INFO @ Wed, 22 Jul 2020 15:04:11: 16000000 INFO @ Wed, 22 Jul 2020 15:04:15: 11000000 INFO @ Wed, 22 Jul 2020 15:04:16: 6000000 INFO @ Wed, 22 Jul 2020 15:04:17: 17000000 INFO @ Wed, 22 Jul 2020 15:04:21: 12000000 INFO @ Wed, 22 Jul 2020 15:04:22: 7000000 INFO @ Wed, 22 Jul 2020 15:04:23: 18000000 INFO @ Wed, 22 Jul 2020 15:04:27: 13000000 INFO @ Wed, 22 Jul 2020 15:04:28: 8000000 INFO @ Wed, 22 Jul 2020 15:04:30: 19000000 INFO @ Wed, 22 Jul 2020 15:04:33: 14000000 INFO @ Wed, 22 Jul 2020 15:04:34: 9000000 INFO @ Wed, 22 Jul 2020 15:04:36: 20000000 INFO @ Wed, 22 Jul 2020 15:04:39: 15000000 INFO @ Wed, 22 Jul 2020 15:04:40: 10000000 INFO @ Wed, 22 Jul 2020 15:04:42: 21000000 INFO @ Wed, 22 Jul 2020 15:04:45: 16000000 INFO @ Wed, 22 Jul 2020 15:04:46: 11000000 INFO @ Wed, 22 Jul 2020 15:04:48: 22000000 INFO @ Wed, 22 Jul 2020 15:04:51: 17000000 INFO @ Wed, 22 Jul 2020 15:04:52: 12000000 INFO @ Wed, 22 Jul 2020 15:04:54: 23000000 INFO @ Wed, 22 Jul 2020 15:04:58: 18000000 INFO @ Wed, 22 Jul 2020 15:04:58: 13000000 INFO @ Wed, 22 Jul 2020 15:05:00: 24000000 INFO @ Wed, 22 Jul 2020 15:05:04: 19000000 INFO @ Wed, 22 Jul 2020 15:05:04: 14000000 INFO @ Wed, 22 Jul 2020 15:05:06: 25000000 INFO @ Wed, 22 Jul 2020 15:05:10: 20000000 INFO @ Wed, 22 Jul 2020 15:05:10: 15000000 INFO @ Wed, 22 Jul 2020 15:05:12: 26000000 INFO @ Wed, 22 Jul 2020 15:05:16: 16000000 INFO @ Wed, 22 Jul 2020 15:05:16: 21000000 INFO @ Wed, 22 Jul 2020 15:05:18: 27000000 INFO @ Wed, 22 Jul 2020 15:05:22: 22000000 INFO @ Wed, 22 Jul 2020 15:05:22: 17000000 INFO @ Wed, 22 Jul 2020 15:05:24: 28000000 INFO @ Wed, 22 Jul 2020 15:05:28: 23000000 INFO @ Wed, 22 Jul 2020 15:05:28: 18000000 INFO @ Wed, 22 Jul 2020 15:05:30: 29000000 INFO @ Wed, 22 Jul 2020 15:05:34: 24000000 INFO @ Wed, 22 Jul 2020 15:05:34: 19000000 INFO @ Wed, 22 Jul 2020 15:05:36: 30000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 15:05:40: 25000000 INFO @ Wed, 22 Jul 2020 15:05:40: 20000000 INFO @ Wed, 22 Jul 2020 15:05:42: 31000000 INFO @ Wed, 22 Jul 2020 15:05:46: 26000000 INFO @ Wed, 22 Jul 2020 15:05:46: 21000000 INFO @ Wed, 22 Jul 2020 15:05:48: 32000000 INFO @ Wed, 22 Jul 2020 15:05:52: 27000000 INFO @ Wed, 22 Jul 2020 15:05:52: 22000000 INFO @ Wed, 22 Jul 2020 15:05:55: 33000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 15:05:58: 28000000 INFO @ Wed, 22 Jul 2020 15:05:58: 23000000 INFO @ Wed, 22 Jul 2020 15:06:01: 34000000 INFO @ Wed, 22 Jul 2020 15:06:04: 29000000 INFO @ Wed, 22 Jul 2020 15:06:04: 24000000 INFO @ Wed, 22 Jul 2020 15:06:07: 35000000 INFO @ Wed, 22 Jul 2020 15:06:10: 30000000 INFO @ Wed, 22 Jul 2020 15:06:10: 25000000 INFO @ Wed, 22 Jul 2020 15:06:13: 36000000 INFO @ Wed, 22 Jul 2020 15:06:16: 31000000 INFO @ Wed, 22 Jul 2020 15:06:16: 26000000 INFO @ Wed, 22 Jul 2020 15:06:19: 37000000 INFO @ Wed, 22 Jul 2020 15:06:22: 32000000 INFO @ Wed, 22 Jul 2020 15:06:22: 27000000 INFO @ Wed, 22 Jul 2020 15:06:25: 38000000 INFO @ Wed, 22 Jul 2020 15:06:28: 33000000 INFO @ Wed, 22 Jul 2020 15:06:28: 28000000 INFO @ Wed, 22 Jul 2020 15:06:31: 39000000 INFO @ Wed, 22 Jul 2020 15:06:34: 34000000 INFO @ Wed, 22 Jul 2020 15:06:34: 29000000 INFO @ Wed, 22 Jul 2020 15:06:38: 40000000 INFO @ Wed, 22 Jul 2020 15:06:40: 35000000 INFO @ Wed, 22 Jul 2020 15:06:40: 30000000 INFO @ Wed, 22 Jul 2020 15:06:44: 41000000 INFO @ Wed, 22 Jul 2020 15:06:46: 36000000 INFO @ Wed, 22 Jul 2020 15:06:46: 31000000 INFO @ Wed, 22 Jul 2020 15:06:50: 42000000 INFO @ Wed, 22 Jul 2020 15:06:52: 37000000 INFO @ Wed, 22 Jul 2020 15:06:53: 32000000 INFO @ Wed, 22 Jul 2020 15:06:56: 43000000 INFO @ Wed, 22 Jul 2020 15:06:58: 38000000 INFO @ Wed, 22 Jul 2020 15:06:59: 33000000 INFO @ Wed, 22 Jul 2020 15:07:02: 44000000 INFO @ Wed, 22 Jul 2020 15:07:05: 39000000 INFO @ Wed, 22 Jul 2020 15:07:05: 34000000 INFO @ Wed, 22 Jul 2020 15:07:09: 45000000 INFO @ Wed, 22 Jul 2020 15:07:11: 40000000 INFO @ Wed, 22 Jul 2020 15:07:11: 35000000 INFO @ Wed, 22 Jul 2020 15:07:15: 46000000 INFO @ Wed, 22 Jul 2020 15:07:17: 41000000 INFO @ Wed, 22 Jul 2020 15:07:17: 36000000 INFO @ Wed, 22 Jul 2020 15:07:21: 47000000 INFO @ Wed, 22 Jul 2020 15:07:23: #1 tag size is determined as 51 bps INFO @ Wed, 22 Jul 2020 15:07:23: #1 tag size = 51 INFO @ Wed, 22 Jul 2020 15:07:23: #1 total tags in treatment: 23278971 INFO @ Wed, 22 Jul 2020 15:07:23: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:07:23: #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 15:07:23: 42000000 INFO @ Wed, 22 Jul 2020 15:07:23: #1 tags after filtering in treatment: 7953715 INFO @ Wed, 22 Jul 2020 15:07:23: #1 Redundant rate of treatment: 0.66 INFO @ Wed, 22 Jul 2020 15:07:23: #1 finished! INFO @ Wed, 22 Jul 2020 15:07:23: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:07:23: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:07:23: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 15:07:23: 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 15:07:23: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8357696/SRX8357696.05_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/SRX8357696/SRX8357696.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357696/SRX8357696.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357696/SRX8357696.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 15:07:24: 37000000 INFO @ Wed, 22 Jul 2020 15:07:29: 43000000 INFO @ Wed, 22 Jul 2020 15:07:30: 38000000 INFO @ Wed, 22 Jul 2020 15:07:35: 44000000 INFO @ Wed, 22 Jul 2020 15:07:36: 39000000 INFO @ Wed, 22 Jul 2020 15:07:41: 45000000 INFO @ Wed, 22 Jul 2020 15:07:42: 40000000 INFO @ Wed, 22 Jul 2020 15:07:47: 46000000 INFO @ Wed, 22 Jul 2020 15:07:48: 41000000 INFO @ Wed, 22 Jul 2020 15:07:53: 47000000 INFO @ Wed, 22 Jul 2020 15:07:54: 42000000 INFO @ Wed, 22 Jul 2020 15:07:55: #1 tag size is determined as 51 bps INFO @ Wed, 22 Jul 2020 15:07:55: #1 tag size = 51 INFO @ Wed, 22 Jul 2020 15:07:55: #1 total tags in treatment: 23278971 INFO @ Wed, 22 Jul 2020 15:07:55: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:07:55: #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 15:07:55: #1 tags after filtering in treatment: 7953715 INFO @ Wed, 22 Jul 2020 15:07:55: #1 Redundant rate of treatment: 0.66 INFO @ Wed, 22 Jul 2020 15:07:55: #1 finished! INFO @ Wed, 22 Jul 2020 15:07:55: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:07:55: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:07:56: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 15:07:56: 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 15:07:56: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8357696/SRX8357696.10_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/SRX8357696/SRX8357696.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357696/SRX8357696.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357696/SRX8357696.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 15:08:00: 43000000 INFO @ Wed, 22 Jul 2020 15:08:06: 44000000 INFO @ Wed, 22 Jul 2020 15:08:12: 45000000 INFO @ Wed, 22 Jul 2020 15:08:17: 46000000 INFO @ Wed, 22 Jul 2020 15:08:23: 47000000 INFO @ Wed, 22 Jul 2020 15:08:24: #1 tag size is determined as 51 bps INFO @ Wed, 22 Jul 2020 15:08:24: #1 tag size = 51 INFO @ Wed, 22 Jul 2020 15:08:24: #1 total tags in treatment: 23278971 INFO @ Wed, 22 Jul 2020 15:08:24: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:08:24: #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 15:08:25: #1 tags after filtering in treatment: 7953715 INFO @ Wed, 22 Jul 2020 15:08:25: #1 Redundant rate of treatment: 0.66 INFO @ Wed, 22 Jul 2020 15:08:25: #1 finished! INFO @ Wed, 22 Jul 2020 15:08:25: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:08:25: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:08:25: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 15:08:25: 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 15:08:25: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8357696/SRX8357696.20_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/SRX8357696/SRX8357696.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357696/SRX8357696.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357696/SRX8357696.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling