Job ID = 7116818 SRX = SRX8639487 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-07-22T06:18:03 prefetch.2.10.7: 1) Downloading 'SRR12117051'... 2020-07-22T06:18:03 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T06:20:09 prefetch.2.10.7: HTTPS download succeed 2020-07-22T06:20:09 prefetch.2.10.7: 1) 'SRR12117051' was downloaded successfully 2020-07-22T06:20:09 prefetch.2.10.7: 'SRR12117051' has 0 unresolved dependencies Read 24154185 spots for SRR12117051/SRR12117051.sra Written 24154185 spots for SRR12117051/SRR12117051.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: 00:08:23 24154185 reads; of these: 24154185 (100.00%) were paired; of these: 10193198 (42.20%) aligned concordantly 0 times 12836120 (53.14%) aligned concordantly exactly 1 time 1124867 (4.66%) aligned concordantly >1 times ---- 10193198 pairs aligned concordantly 0 times; of these: 118590 (1.16%) aligned discordantly 1 time ---- 10074608 pairs aligned 0 times concordantly or discordantly; of these: 20149216 mates make up the pairs; of these: 19926997 (98.90%) aligned 0 times 184008 (0.91%) aligned exactly 1 time 38211 (0.19%) aligned >1 times 58.75% overall alignment rate Time searching: 00:08:23 Overall time: 00:08:23 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] 165670 / 14060349 = 0.0118 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 15:36:18: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639487/SRX8639487.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639487/SRX8639487.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639487/SRX8639487.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639487/SRX8639487.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 15:36:18: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:36:18: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:36:22: 1000000 INFO @ Wed, 22 Jul 2020 15:36:27: 2000000 INFO @ Wed, 22 Jul 2020 15:36:31: 3000000 INFO @ Wed, 22 Jul 2020 15:36:36: 4000000 INFO @ Wed, 22 Jul 2020 15:36:40: 5000000 INFO @ Wed, 22 Jul 2020 15:36:44: 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 15:36:48: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639487/SRX8639487.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639487/SRX8639487.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639487/SRX8639487.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639487/SRX8639487.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 15:36:48: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:36:48: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:36:49: 7000000 INFO @ Wed, 22 Jul 2020 15:36:53: 1000000 INFO @ Wed, 22 Jul 2020 15:36:54: 8000000 INFO @ Wed, 22 Jul 2020 15:36:58: 2000000 INFO @ Wed, 22 Jul 2020 15:36:58: 9000000 INFO @ Wed, 22 Jul 2020 15:37:03: 3000000 INFO @ Wed, 22 Jul 2020 15:37:03: 10000000 INFO @ Wed, 22 Jul 2020 15:37:07: 4000000 INFO @ Wed, 22 Jul 2020 15:37:08: 11000000 INFO @ Wed, 22 Jul 2020 15:37:12: 5000000 INFO @ Wed, 22 Jul 2020 15:37:13: 12000000 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 15:37:17: 6000000 INFO @ Wed, 22 Jul 2020 15:37:18: 13000000 INFO @ Wed, 22 Jul 2020 15:37:18: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639487/SRX8639487.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639487/SRX8639487.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639487/SRX8639487.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639487/SRX8639487.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 15:37:18: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:37:18: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:37:22: 7000000 INFO @ Wed, 22 Jul 2020 15:37:23: 14000000 INFO @ Wed, 22 Jul 2020 15:37:24: 1000000 INFO @ Wed, 22 Jul 2020 15:37:27: 8000000 INFO @ Wed, 22 Jul 2020 15:37:28: 15000000 INFO @ Wed, 22 Jul 2020 15:37:29: 2000000 INFO @ Wed, 22 Jul 2020 15:37:32: 9000000 INFO @ Wed, 22 Jul 2020 15:37:33: 16000000 INFO @ Wed, 22 Jul 2020 15:37:35: 3000000 INFO @ Wed, 22 Jul 2020 15:37:37: 10000000 INFO @ Wed, 22 Jul 2020 15:37:37: 17000000 INFO @ Wed, 22 Jul 2020 15:37:40: 4000000 INFO @ Wed, 22 Jul 2020 15:37:42: 11000000 INFO @ Wed, 22 Jul 2020 15:37:42: 18000000 INFO @ Wed, 22 Jul 2020 15:37:46: 5000000 INFO @ Wed, 22 Jul 2020 15:37:47: 12000000 INFO @ Wed, 22 Jul 2020 15:37:47: 19000000 INFO @ Wed, 22 Jul 2020 15:37:52: 6000000 INFO @ Wed, 22 Jul 2020 15:37:52: 13000000 INFO @ Wed, 22 Jul 2020 15:37:52: 20000000 INFO @ Wed, 22 Jul 2020 15:37:57: 14000000 INFO @ Wed, 22 Jul 2020 15:37:57: 21000000 INFO @ Wed, 22 Jul 2020 15:37:57: 7000000 INFO @ Wed, 22 Jul 2020 15:38:02: 15000000 INFO @ Wed, 22 Jul 2020 15:38:02: 22000000 INFO @ Wed, 22 Jul 2020 15:38:03: 8000000 INFO @ Wed, 22 Jul 2020 15:38:07: 16000000 INFO @ Wed, 22 Jul 2020 15:38:07: 23000000 INFO @ Wed, 22 Jul 2020 15:38:08: 9000000 INFO @ Wed, 22 Jul 2020 15:38:12: 17000000 INFO @ Wed, 22 Jul 2020 15:38:12: 24000000 INFO @ Wed, 22 Jul 2020 15:38:14: 10000000 INFO @ Wed, 22 Jul 2020 15:38:17: 18000000 INFO @ Wed, 22 Jul 2020 15:38:17: 25000000 INFO @ Wed, 22 Jul 2020 15:38:19: 11000000 INFO @ Wed, 22 Jul 2020 15:38:21: 19000000 INFO @ Wed, 22 Jul 2020 15:38:22: 26000000 INFO @ Wed, 22 Jul 2020 15:38:25: 12000000 INFO @ Wed, 22 Jul 2020 15:38:26: 20000000 INFO @ Wed, 22 Jul 2020 15:38:26: 27000000 INFO @ Wed, 22 Jul 2020 15:38:30: 13000000 INFO @ Wed, 22 Jul 2020 15:38:31: 21000000 INFO @ Wed, 22 Jul 2020 15:38:31: 28000000 INFO @ Wed, 22 Jul 2020 15:38:32: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 15:38:32: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 15:38:32: #1 total tags in treatment: 13795394 INFO @ Wed, 22 Jul 2020 15:38:32: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:38:32: #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 15:38:32: #1 tags after filtering in treatment: 9106540 INFO @ Wed, 22 Jul 2020 15:38:32: #1 Redundant rate of treatment: 0.34 INFO @ Wed, 22 Jul 2020 15:38:32: #1 finished! INFO @ Wed, 22 Jul 2020 15:38:32: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:38:32: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:38:33: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 15:38:33: 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 15:38:33: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639487/SRX8639487.05_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/SRX8639487/SRX8639487.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639487/SRX8639487.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639487/SRX8639487.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 15:38:36: 14000000 INFO @ Wed, 22 Jul 2020 15:38:36: 22000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 15:38:41: 23000000 INFO @ Wed, 22 Jul 2020 15:38:41: 15000000 INFO @ Wed, 22 Jul 2020 15:38:45: 24000000 INFO @ Wed, 22 Jul 2020 15:38:47: 16000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 15:38:50: 25000000 INFO @ Wed, 22 Jul 2020 15:38:52: 17000000 INFO @ Wed, 22 Jul 2020 15:38:55: 26000000 INFO @ Wed, 22 Jul 2020 15:38:58: 18000000 INFO @ Wed, 22 Jul 2020 15:39:00: 27000000 INFO @ Wed, 22 Jul 2020 15:39:03: 19000000 INFO @ Wed, 22 Jul 2020 15:39:04: 28000000 INFO @ Wed, 22 Jul 2020 15:39:05: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 15:39:05: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 15:39:05: #1 total tags in treatment: 13795394 INFO @ Wed, 22 Jul 2020 15:39:05: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:39:05: #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 15:39:05: #1 tags after filtering in treatment: 9106540 INFO @ Wed, 22 Jul 2020 15:39:05: #1 Redundant rate of treatment: 0.34 INFO @ Wed, 22 Jul 2020 15:39:05: #1 finished! INFO @ Wed, 22 Jul 2020 15:39:05: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:39:05: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:39:05: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 15:39:05: 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 15:39:05: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639487/SRX8639487.10_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/SRX8639487/SRX8639487.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639487/SRX8639487.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639487/SRX8639487.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 15:39:08: 20000000 INFO @ Wed, 22 Jul 2020 15:39:14: 21000000 INFO @ Wed, 22 Jul 2020 15:39:19: 22000000 INFO @ Wed, 22 Jul 2020 15:39:24: 23000000 INFO @ Wed, 22 Jul 2020 15:39:29: 24000000 INFO @ Wed, 22 Jul 2020 15:39:34: 25000000 INFO @ Wed, 22 Jul 2020 15:39:39: 26000000 INFO @ Wed, 22 Jul 2020 15:39:44: 27000000 INFO @ Wed, 22 Jul 2020 15:39:49: 28000000 INFO @ Wed, 22 Jul 2020 15:39:50: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 15:39:50: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 15:39:50: #1 total tags in treatment: 13795394 INFO @ Wed, 22 Jul 2020 15:39:50: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:39:50: #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 15:39:50: #1 tags after filtering in treatment: 9106540 INFO @ Wed, 22 Jul 2020 15:39:50: #1 Redundant rate of treatment: 0.34 INFO @ Wed, 22 Jul 2020 15:39:50: #1 finished! INFO @ Wed, 22 Jul 2020 15:39:50: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:39:50: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:39:51: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 15:39:51: 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 15:39:51: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639487/SRX8639487.20_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/SRX8639487/SRX8639487.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639487/SRX8639487.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639487/SRX8639487.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling