Job ID = 7116882 SRX = SRX8639490 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-07-22T06:19:48 prefetch.2.10.7: 1) Downloading 'SRR12117054'... 2020-07-22T06:19:48 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T06:21:53 prefetch.2.10.7: HTTPS download succeed 2020-07-22T06:21:53 prefetch.2.10.7: 1) 'SRR12117054' was downloaded successfully 2020-07-22T06:21:53 prefetch.2.10.7: 'SRR12117054' has 0 unresolved dependencies Read 24991522 spots for SRR12117054/SRR12117054.sra Written 24991522 spots for SRR12117054/SRR12117054.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: 00:07:31 24991522 reads; of these: 24991522 (100.00%) were paired; of these: 13325897 (53.32%) aligned concordantly 0 times 10727641 (42.93%) aligned concordantly exactly 1 time 937984 (3.75%) aligned concordantly >1 times ---- 13325897 pairs aligned concordantly 0 times; of these: 79214 (0.59%) aligned discordantly 1 time ---- 13246683 pairs aligned 0 times concordantly or discordantly; of these: 26493366 mates make up the pairs; of these: 26302216 (99.28%) aligned 0 times 157595 (0.59%) aligned exactly 1 time 33555 (0.13%) aligned >1 times 47.38% overall alignment rate Time searching: 00:07:31 Overall time: 00:07:31 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] 134098 / 11730694 = 0.0114 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 15:36:25: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639490/SRX8639490.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639490/SRX8639490.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639490/SRX8639490.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639490/SRX8639490.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 15:36:25: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:36:25: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:36:32: 1000000 INFO @ Wed, 22 Jul 2020 15:36:38: 2000000 INFO @ Wed, 22 Jul 2020 15:36:45: 3000000 INFO @ Wed, 22 Jul 2020 15:36:51: 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 15:36:55: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639490/SRX8639490.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639490/SRX8639490.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639490/SRX8639490.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639490/SRX8639490.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 15:36:55: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:36:55: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:36:58: 5000000 INFO @ Wed, 22 Jul 2020 15:37:02: 1000000 INFO @ Wed, 22 Jul 2020 15:37:05: 6000000 INFO @ Wed, 22 Jul 2020 15:37:09: 2000000 INFO @ Wed, 22 Jul 2020 15:37:12: 7000000 INFO @ Wed, 22 Jul 2020 15:37:17: 3000000 INFO @ Wed, 22 Jul 2020 15:37:19: 8000000 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 15:37:24: 4000000 INFO @ Wed, 22 Jul 2020 15:37:25: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639490/SRX8639490.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639490/SRX8639490.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639490/SRX8639490.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639490/SRX8639490.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 15:37:25: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:37:25: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:37:27: 9000000 INFO @ Wed, 22 Jul 2020 15:37:31: 5000000 INFO @ Wed, 22 Jul 2020 15:37:32: 1000000 INFO @ Wed, 22 Jul 2020 15:37:34: 10000000 INFO @ Wed, 22 Jul 2020 15:37:38: 6000000 INFO @ Wed, 22 Jul 2020 15:37:40: 2000000 INFO @ Wed, 22 Jul 2020 15:37:41: 11000000 INFO @ Wed, 22 Jul 2020 15:37:46: 7000000 INFO @ Wed, 22 Jul 2020 15:37:47: 3000000 INFO @ Wed, 22 Jul 2020 15:37:48: 12000000 INFO @ Wed, 22 Jul 2020 15:37:53: 8000000 INFO @ Wed, 22 Jul 2020 15:37:54: 4000000 INFO @ Wed, 22 Jul 2020 15:37:56: 13000000 INFO @ Wed, 22 Jul 2020 15:38:00: 9000000 INFO @ Wed, 22 Jul 2020 15:38:02: 5000000 INFO @ Wed, 22 Jul 2020 15:38:03: 14000000 INFO @ Wed, 22 Jul 2020 15:38:07: 10000000 INFO @ Wed, 22 Jul 2020 15:38:09: 6000000 INFO @ Wed, 22 Jul 2020 15:38:10: 15000000 INFO @ Wed, 22 Jul 2020 15:38:15: 11000000 INFO @ Wed, 22 Jul 2020 15:38:16: 7000000 INFO @ Wed, 22 Jul 2020 15:38:18: 16000000 INFO @ Wed, 22 Jul 2020 15:38:22: 12000000 INFO @ Wed, 22 Jul 2020 15:38:23: 8000000 INFO @ Wed, 22 Jul 2020 15:38:25: 17000000 INFO @ Wed, 22 Jul 2020 15:38:29: 13000000 INFO @ Wed, 22 Jul 2020 15:38:30: 9000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 15:38:32: 18000000 INFO @ Wed, 22 Jul 2020 15:38:36: 14000000 INFO @ Wed, 22 Jul 2020 15:38:38: 10000000 INFO @ Wed, 22 Jul 2020 15:38:39: 19000000 INFO @ Wed, 22 Jul 2020 15:38:43: 15000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 15:38:45: 11000000 INFO @ Wed, 22 Jul 2020 15:38:47: 20000000 INFO @ Wed, 22 Jul 2020 15:38:50: 16000000 INFO @ Wed, 22 Jul 2020 15:38:52: 12000000 INFO @ Wed, 22 Jul 2020 15:38:54: 21000000 INFO @ Wed, 22 Jul 2020 15:38:57: 17000000 INFO @ Wed, 22 Jul 2020 15:38:59: 13000000 INFO @ Wed, 22 Jul 2020 15:39:01: 22000000 INFO @ Wed, 22 Jul 2020 15:39:04: 18000000 INFO @ Wed, 22 Jul 2020 15:39:06: 14000000 INFO @ Wed, 22 Jul 2020 15:39:08: 23000000 INFO @ Wed, 22 Jul 2020 15:39:11: 19000000 INFO @ Wed, 22 Jul 2020 15:39:11: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 15:39:11: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 15:39:11: #1 total tags in treatment: 11531598 INFO @ Wed, 22 Jul 2020 15:39:11: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:39:11: #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 15:39:11: #1 tags after filtering in treatment: 8043489 INFO @ Wed, 22 Jul 2020 15:39:11: #1 Redundant rate of treatment: 0.30 INFO @ Wed, 22 Jul 2020 15:39:11: #1 finished! INFO @ Wed, 22 Jul 2020 15:39:11: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:39:11: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:39:11: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 15:39:11: 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 15:39:11: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639490/SRX8639490.05_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/SRX8639490/SRX8639490.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639490/SRX8639490.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639490/SRX8639490.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 15:39:13: 15000000 INFO @ Wed, 22 Jul 2020 15:39:17: 20000000 INFO @ Wed, 22 Jul 2020 15:39:20: 16000000 INFO @ Wed, 22 Jul 2020 15:39:24: 21000000 INFO @ Wed, 22 Jul 2020 15:39:27: 17000000 INFO @ Wed, 22 Jul 2020 15:39:31: 22000000 INFO @ Wed, 22 Jul 2020 15:39:34: 18000000 INFO @ Wed, 22 Jul 2020 15:39:38: 23000000 INFO @ Wed, 22 Jul 2020 15:39:40: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 15:39:40: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 15:39:40: #1 total tags in treatment: 11531598 INFO @ Wed, 22 Jul 2020 15:39:40: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:39:40: #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 15:39:41: #1 tags after filtering in treatment: 8043489 INFO @ Wed, 22 Jul 2020 15:39:41: #1 Redundant rate of treatment: 0.30 INFO @ Wed, 22 Jul 2020 15:39:41: #1 finished! INFO @ Wed, 22 Jul 2020 15:39:41: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:39:41: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:39:41: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 15:39:41: 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 15:39:41: Process for pairing-model is terminated! INFO @ Wed, 22 Jul 2020 15:39:41: 19000000 cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639490/SRX8639490.10_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/SRX8639490/SRX8639490.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639490/SRX8639490.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639490/SRX8639490.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 15:39:47: 20000000 INFO @ Wed, 22 Jul 2020 15:39:54: 21000000 INFO @ Wed, 22 Jul 2020 15:40:00: 22000000 INFO @ Wed, 22 Jul 2020 15:40:07: 23000000 INFO @ Wed, 22 Jul 2020 15:40:09: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 15:40:09: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 15:40:09: #1 total tags in treatment: 11531598 INFO @ Wed, 22 Jul 2020 15:40:09: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:40:09: #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 15:40:09: #1 tags after filtering in treatment: 8043489 INFO @ Wed, 22 Jul 2020 15:40:09: #1 Redundant rate of treatment: 0.30 INFO @ Wed, 22 Jul 2020 15:40:09: #1 finished! INFO @ Wed, 22 Jul 2020 15:40:09: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:40:09: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:40:10: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 15:40:10: 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 15:40:10: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639490/SRX8639490.20_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/SRX8639490/SRX8639490.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639490/SRX8639490.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639490/SRX8639490.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling