Job ID = 7112710 SRX = SRX8357690 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-07-22T05:22:48 prefetch.2.10.7: 1) Downloading 'SRR11806278'... 2020-07-22T05:22:48 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T05:25:25 prefetch.2.10.7: HTTPS download succeed 2020-07-22T05:25:25 prefetch.2.10.7: 1) 'SRR11806278' was downloaded successfully 2020-07-22T05:25:25 prefetch.2.10.7: 'SRR11806278' has 0 unresolved dependencies Read 39726952 spots for SRR11806278/SRR11806278.sra Written 39726952 spots for SRR11806278/SRR11806278.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: 00:20:45 39726952 reads; of these: 39726952 (100.00%) were paired; of these: 1342053 (3.38%) aligned concordantly 0 times 31009188 (78.06%) aligned concordantly exactly 1 time 7375711 (18.57%) aligned concordantly >1 times ---- 1342053 pairs aligned concordantly 0 times; of these: 182296 (13.58%) aligned discordantly 1 time ---- 1159757 pairs aligned 0 times concordantly or discordantly; of these: 2319514 mates make up the pairs; of these: 1838980 (79.28%) aligned 0 times 193288 (8.33%) aligned exactly 1 time 287246 (12.38%) aligned >1 times 97.69% overall alignment rate Time searching: 00:20:45 Overall time: 00:20:45 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] 16421007 / 38483159 = 0.4267 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 15:00:25: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8357690/SRX8357690.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8357690/SRX8357690.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8357690/SRX8357690.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8357690/SRX8357690.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 15:00:25: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:00:25: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:00:31: 1000000 INFO @ Wed, 22 Jul 2020 15:00:37: 2000000 INFO @ Wed, 22 Jul 2020 15:00:43: 3000000 INFO @ Wed, 22 Jul 2020 15:00:49: 4000000 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 15:00:55: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8357690/SRX8357690.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8357690/SRX8357690.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8357690/SRX8357690.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8357690/SRX8357690.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 15:00:55: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:00:55: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:00:55: 5000000 INFO @ Wed, 22 Jul 2020 15:01:01: 1000000 INFO @ Wed, 22 Jul 2020 15:01:01: 6000000 INFO @ Wed, 22 Jul 2020 15:01:07: 2000000 INFO @ Wed, 22 Jul 2020 15:01:08: 7000000 INFO @ Wed, 22 Jul 2020 15:01:13: 3000000 INFO @ Wed, 22 Jul 2020 15:01:14: 8000000 INFO @ Wed, 22 Jul 2020 15:01:19: 4000000 INFO @ Wed, 22 Jul 2020 15:01:21: 9000000 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 15:01:25: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8357690/SRX8357690.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8357690/SRX8357690.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8357690/SRX8357690.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8357690/SRX8357690.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 15:01:25: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:01:25: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:01:25: 5000000 INFO @ Wed, 22 Jul 2020 15:01:28: 10000000 INFO @ Wed, 22 Jul 2020 15:01:31: 1000000 INFO @ Wed, 22 Jul 2020 15:01:32: 6000000 INFO @ Wed, 22 Jul 2020 15:01:34: 11000000 INFO @ Wed, 22 Jul 2020 15:01:37: 2000000 INFO @ Wed, 22 Jul 2020 15:01:38: 7000000 INFO @ Wed, 22 Jul 2020 15:01:41: 12000000 INFO @ Wed, 22 Jul 2020 15:01:43: 3000000 INFO @ Wed, 22 Jul 2020 15:01:44: 8000000 INFO @ Wed, 22 Jul 2020 15:01:48: 13000000 INFO @ Wed, 22 Jul 2020 15:01:50: 4000000 INFO @ Wed, 22 Jul 2020 15:01:51: 9000000 INFO @ Wed, 22 Jul 2020 15:01:54: 14000000 INFO @ Wed, 22 Jul 2020 15:01:56: 5000000 INFO @ Wed, 22 Jul 2020 15:01:57: 10000000 INFO @ Wed, 22 Jul 2020 15:02:01: 15000000 INFO @ Wed, 22 Jul 2020 15:02:02: 6000000 INFO @ Wed, 22 Jul 2020 15:02:04: 11000000 INFO @ Wed, 22 Jul 2020 15:02:08: 16000000 INFO @ Wed, 22 Jul 2020 15:02:09: 7000000 INFO @ Wed, 22 Jul 2020 15:02:10: 12000000 INFO @ Wed, 22 Jul 2020 15:02:15: 17000000 INFO @ Wed, 22 Jul 2020 15:02:15: 8000000 INFO @ Wed, 22 Jul 2020 15:02:16: 13000000 INFO @ Wed, 22 Jul 2020 15:02:21: 18000000 INFO @ Wed, 22 Jul 2020 15:02:22: 9000000 INFO @ Wed, 22 Jul 2020 15:02:23: 14000000 INFO @ Wed, 22 Jul 2020 15:02:28: 10000000 INFO @ Wed, 22 Jul 2020 15:02:28: 19000000 INFO @ Wed, 22 Jul 2020 15:02:29: 15000000 INFO @ Wed, 22 Jul 2020 15:02:34: 11000000 INFO @ Wed, 22 Jul 2020 15:02:35: 20000000 INFO @ Wed, 22 Jul 2020 15:02:36: 16000000 INFO @ Wed, 22 Jul 2020 15:02:41: 12000000 INFO @ Wed, 22 Jul 2020 15:02:42: 17000000 INFO @ Wed, 22 Jul 2020 15:02:42: 21000000 INFO @ Wed, 22 Jul 2020 15:02:47: 13000000 INFO @ Wed, 22 Jul 2020 15:02:48: 18000000 INFO @ Wed, 22 Jul 2020 15:02:49: 22000000 INFO @ Wed, 22 Jul 2020 15:02:53: 14000000 INFO @ Wed, 22 Jul 2020 15:02:54: 19000000 INFO @ Wed, 22 Jul 2020 15:02:56: 23000000 INFO @ Wed, 22 Jul 2020 15:02:59: 15000000 INFO @ Wed, 22 Jul 2020 15:03:00: 20000000 INFO @ Wed, 22 Jul 2020 15:03:02: 24000000 INFO @ Wed, 22 Jul 2020 15:03:06: 16000000 INFO @ Wed, 22 Jul 2020 15:03:07: 21000000 INFO @ Wed, 22 Jul 2020 15:03:09: 25000000 INFO @ Wed, 22 Jul 2020 15:03:12: 17000000 INFO @ Wed, 22 Jul 2020 15:03:13: 22000000 INFO @ Wed, 22 Jul 2020 15:03:15: 26000000 INFO @ Wed, 22 Jul 2020 15:03:18: 18000000 INFO @ Wed, 22 Jul 2020 15:03:19: 23000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 15:03:22: 27000000 INFO @ Wed, 22 Jul 2020 15:03:25: 19000000 INFO @ Wed, 22 Jul 2020 15:03:26: 24000000 INFO @ Wed, 22 Jul 2020 15:03:28: 28000000 INFO @ Wed, 22 Jul 2020 15:03:31: 20000000 INFO @ Wed, 22 Jul 2020 15:03:32: 25000000 INFO @ Wed, 22 Jul 2020 15:03:35: 29000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 15:03:37: 21000000 INFO @ Wed, 22 Jul 2020 15:03:38: 26000000 INFO @ Wed, 22 Jul 2020 15:03:42: 30000000 INFO @ Wed, 22 Jul 2020 15:03:44: 22000000 INFO @ Wed, 22 Jul 2020 15:03:45: 27000000 INFO @ Wed, 22 Jul 2020 15:03:48: 31000000 INFO @ Wed, 22 Jul 2020 15:03:50: 23000000 INFO @ Wed, 22 Jul 2020 15:03:51: 28000000 INFO @ Wed, 22 Jul 2020 15:03:55: 32000000 INFO @ Wed, 22 Jul 2020 15:03:56: 24000000 INFO @ Wed, 22 Jul 2020 15:03:57: 29000000 INFO @ Wed, 22 Jul 2020 15:04:01: 33000000 INFO @ Wed, 22 Jul 2020 15:04:02: 25000000 INFO @ Wed, 22 Jul 2020 15:04:04: 30000000 INFO @ Wed, 22 Jul 2020 15:04:08: 34000000 INFO @ Wed, 22 Jul 2020 15:04:09: 26000000 INFO @ Wed, 22 Jul 2020 15:04:10: 31000000 INFO @ Wed, 22 Jul 2020 15:04:15: 27000000 INFO @ Wed, 22 Jul 2020 15:04:15: 35000000 INFO @ Wed, 22 Jul 2020 15:04:16: 32000000 INFO @ Wed, 22 Jul 2020 15:04:21: 28000000 INFO @ Wed, 22 Jul 2020 15:04:22: 36000000 INFO @ Wed, 22 Jul 2020 15:04:22: 33000000 INFO @ Wed, 22 Jul 2020 15:04:28: 29000000 INFO @ Wed, 22 Jul 2020 15:04:29: 37000000 INFO @ Wed, 22 Jul 2020 15:04:29: 34000000 INFO @ Wed, 22 Jul 2020 15:04:34: 30000000 INFO @ Wed, 22 Jul 2020 15:04:35: 35000000 INFO @ Wed, 22 Jul 2020 15:04:35: 38000000 INFO @ Wed, 22 Jul 2020 15:04:40: 31000000 INFO @ Wed, 22 Jul 2020 15:04:41: 36000000 INFO @ Wed, 22 Jul 2020 15:04:42: 39000000 INFO @ Wed, 22 Jul 2020 15:04:47: 32000000 INFO @ Wed, 22 Jul 2020 15:04:47: 37000000 INFO @ Wed, 22 Jul 2020 15:04:49: 40000000 INFO @ Wed, 22 Jul 2020 15:04:53: 33000000 INFO @ Wed, 22 Jul 2020 15:04:54: 38000000 INFO @ Wed, 22 Jul 2020 15:04:56: 41000000 INFO @ Wed, 22 Jul 2020 15:04:59: 34000000 INFO @ Wed, 22 Jul 2020 15:05:00: 39000000 INFO @ Wed, 22 Jul 2020 15:05:03: 42000000 INFO @ Wed, 22 Jul 2020 15:05:05: 35000000 INFO @ Wed, 22 Jul 2020 15:05:06: 40000000 INFO @ Wed, 22 Jul 2020 15:05:09: 43000000 INFO @ Wed, 22 Jul 2020 15:05:12: 36000000 INFO @ Wed, 22 Jul 2020 15:05:13: 41000000 INFO @ Wed, 22 Jul 2020 15:05:16: 44000000 INFO @ Wed, 22 Jul 2020 15:05:18: 37000000 INFO @ Wed, 22 Jul 2020 15:05:19: 42000000 INFO @ Wed, 22 Jul 2020 15:05:21: #1 tag size is determined as 51 bps INFO @ Wed, 22 Jul 2020 15:05:21: #1 tag size = 51 INFO @ Wed, 22 Jul 2020 15:05:21: #1 total tags in treatment: 22001045 INFO @ Wed, 22 Jul 2020 15:05:21: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:05:21: #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 15:05:22: #1 tags after filtering in treatment: 7748383 INFO @ Wed, 22 Jul 2020 15:05:22: #1 Redundant rate of treatment: 0.65 INFO @ Wed, 22 Jul 2020 15:05:22: #1 finished! INFO @ Wed, 22 Jul 2020 15:05:22: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:05:22: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:05:22: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 15:05:22: 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 15:05:22: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8357690/SRX8357690.05_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/SRX8357690/SRX8357690.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357690/SRX8357690.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357690/SRX8357690.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 15:05:24: 38000000 INFO @ Wed, 22 Jul 2020 15:05:25: 43000000 INFO @ Wed, 22 Jul 2020 15:05:30: 39000000 INFO @ Wed, 22 Jul 2020 15:05:31: 44000000 INFO @ Wed, 22 Jul 2020 15:05:36: #1 tag size is determined as 51 bps INFO @ Wed, 22 Jul 2020 15:05:36: #1 tag size = 51 INFO @ Wed, 22 Jul 2020 15:05:36: #1 total tags in treatment: 22001045 INFO @ Wed, 22 Jul 2020 15:05:36: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:05:36: #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 15:05:36: 40000000 INFO @ Wed, 22 Jul 2020 15:05:36: #1 tags after filtering in treatment: 7748383 INFO @ Wed, 22 Jul 2020 15:05:36: #1 Redundant rate of treatment: 0.65 INFO @ Wed, 22 Jul 2020 15:05:36: #1 finished! INFO @ Wed, 22 Jul 2020 15:05:36: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:05:36: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:05:37: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 15:05:37: 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 15:05:37: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8357690/SRX8357690.10_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/SRX8357690/SRX8357690.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357690/SRX8357690.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357690/SRX8357690.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 15:05:42: 41000000 INFO @ Wed, 22 Jul 2020 15:05:47: 42000000 INFO @ Wed, 22 Jul 2020 15:05:53: 43000000 INFO @ Wed, 22 Jul 2020 15:05:58: 44000000 INFO @ Wed, 22 Jul 2020 15:06:03: #1 tag size is determined as 51 bps INFO @ Wed, 22 Jul 2020 15:06:03: #1 tag size = 51 INFO @ Wed, 22 Jul 2020 15:06:03: #1 total tags in treatment: 22001045 INFO @ Wed, 22 Jul 2020 15:06:03: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:06:03: #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 15:06:03: #1 tags after filtering in treatment: 7748383 INFO @ Wed, 22 Jul 2020 15:06:03: #1 Redundant rate of treatment: 0.65 INFO @ Wed, 22 Jul 2020 15:06:03: #1 finished! INFO @ Wed, 22 Jul 2020 15:06:03: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:06:03: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:06:04: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 15:06:04: 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 15:06:04: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8357690/SRX8357690.20_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/SRX8357690/SRX8357690.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357690/SRX8357690.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357690/SRX8357690.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling