Job ID = 5791123 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 12,458,202 reads read : 24,916,404 reads written : 24,916,404 rm: cannot remove ‘[DSE]RR*’: No such file or directory 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: 00:04:59 12458202 reads; of these: 12458202 (100.00%) were paired; of these: 915705 (7.35%) aligned concordantly 0 times 10042009 (80.61%) aligned concordantly exactly 1 time 1500488 (12.04%) aligned concordantly >1 times ---- 915705 pairs aligned concordantly 0 times; of these: 4735 (0.52%) aligned discordantly 1 time ---- 910970 pairs aligned 0 times concordantly or discordantly; of these: 1821940 mates make up the pairs; of these: 1668967 (91.60%) aligned 0 times 128341 (7.04%) aligned exactly 1 time 24632 (1.35%) aligned >1 times 93.30% overall alignment rate Time searching: 00:04:59 Overall time: 00:04:59 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 8 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] 2447934 / 11545237 = 0.2120 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 Apr 2020 08:47:32: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6614919/SRX6614919.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6614919/SRX6614919.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6614919/SRX6614919.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6614919/SRX6614919.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 Apr 2020 08:47:32: #1 read tag files... INFO @ Wed, 22 Apr 2020 08:47:32: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 08:47:37: 1000000 INFO @ Wed, 22 Apr 2020 08:47:42: 2000000 INFO @ Wed, 22 Apr 2020 08:47:46: 3000000 INFO @ Wed, 22 Apr 2020 08:47:51: 4000000 INFO @ Wed, 22 Apr 2020 08:47:55: 5000000 INFO @ Wed, 22 Apr 2020 08:48:00: 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 Apr 2020 08:48:02: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6614919/SRX6614919.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6614919/SRX6614919.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6614919/SRX6614919.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6614919/SRX6614919.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 Apr 2020 08:48:02: #1 read tag files... INFO @ Wed, 22 Apr 2020 08:48:02: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 08:48:05: 7000000 INFO @ Wed, 22 Apr 2020 08:48:07: 1000000 INFO @ Wed, 22 Apr 2020 08:48:10: 8000000 INFO @ Wed, 22 Apr 2020 08:48:13: 2000000 INFO @ Wed, 22 Apr 2020 08:48:15: 9000000 INFO @ Wed, 22 Apr 2020 08:48:18: 3000000 INFO @ Wed, 22 Apr 2020 08:48:20: 10000000 INFO @ Wed, 22 Apr 2020 08:48:24: 4000000 INFO @ Wed, 22 Apr 2020 08:48:26: 11000000 INFO @ Wed, 22 Apr 2020 08:48:29: 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 Apr 2020 08:48:32: 12000000 INFO @ Wed, 22 Apr 2020 08:48:33: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6614919/SRX6614919.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6614919/SRX6614919.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6614919/SRX6614919.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6614919/SRX6614919.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 Apr 2020 08:48:33: #1 read tag files... INFO @ Wed, 22 Apr 2020 08:48:33: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 08:48:35: 6000000 INFO @ Wed, 22 Apr 2020 08:48:37: 13000000 INFO @ Wed, 22 Apr 2020 08:48:38: 1000000 INFO @ Wed, 22 Apr 2020 08:48:40: 7000000 INFO @ Wed, 22 Apr 2020 08:48:43: 14000000 INFO @ Wed, 22 Apr 2020 08:48:44: 2000000 INFO @ Wed, 22 Apr 2020 08:48:46: 8000000 INFO @ Wed, 22 Apr 2020 08:48:49: 15000000 INFO @ Wed, 22 Apr 2020 08:48:50: 3000000 INFO @ Wed, 22 Apr 2020 08:48:52: 9000000 INFO @ Wed, 22 Apr 2020 08:48:54: 16000000 INFO @ Wed, 22 Apr 2020 08:48:55: 4000000 INFO @ Wed, 22 Apr 2020 08:48:57: 10000000 INFO @ Wed, 22 Apr 2020 08:49:00: 17000000 INFO @ Wed, 22 Apr 2020 08:49:01: 5000000 INFO @ Wed, 22 Apr 2020 08:49:03: 11000000 INFO @ Wed, 22 Apr 2020 08:49:06: 18000000 INFO @ Wed, 22 Apr 2020 08:49:06: 6000000 INFO @ Wed, 22 Apr 2020 08:49:08: #1 tag size is determined as 37 bps INFO @ Wed, 22 Apr 2020 08:49:08: #1 tag size = 37 INFO @ Wed, 22 Apr 2020 08:49:08: #1 total tags in treatment: 9094911 INFO @ Wed, 22 Apr 2020 08:49:08: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 08:49:08: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Apr 2020 08:49:08: #1 tags after filtering in treatment: 4732620 INFO @ Wed, 22 Apr 2020 08:49:08: #1 Redundant rate of treatment: 0.48 INFO @ Wed, 22 Apr 2020 08:49:08: #1 finished! INFO @ Wed, 22 Apr 2020 08:49:08: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 08:49:08: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 08:49:08: #2 number of paired peaks: 0 WARNING @ Wed, 22 Apr 2020 08:49:08: 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 Apr 2020 08:49:08: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6614919/SRX6614919.05_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/SRX6614919/SRX6614919.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6614919/SRX6614919.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6614919/SRX6614919.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Apr 2020 08:49:09: 12000000 INFO @ Wed, 22 Apr 2020 08:49:12: 7000000 INFO @ Wed, 22 Apr 2020 08:49:15: 13000000 INFO @ Wed, 22 Apr 2020 08:49:18: 8000000 INFO @ Wed, 22 Apr 2020 08:49:21: 14000000 INFO @ Wed, 22 Apr 2020 08:49:23: 9000000 INFO @ Wed, 22 Apr 2020 08:49:26: 15000000 INFO @ Wed, 22 Apr 2020 08:49:29: 10000000 INFO @ Wed, 22 Apr 2020 08:49:32: 16000000 INFO @ Wed, 22 Apr 2020 08:49:35: 11000000 INFO @ Wed, 22 Apr 2020 08:49:38: 17000000 INFO @ Wed, 22 Apr 2020 08:49:40: 12000000 INFO @ Wed, 22 Apr 2020 08:49:44: 18000000 INFO @ Wed, 22 Apr 2020 08:49:46: 13000000 INFO @ Wed, 22 Apr 2020 08:49:46: #1 tag size is determined as 37 bps INFO @ Wed, 22 Apr 2020 08:49:46: #1 tag size = 37 INFO @ Wed, 22 Apr 2020 08:49:46: #1 total tags in treatment: 9094911 INFO @ Wed, 22 Apr 2020 08:49:46: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 08:49:46: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Apr 2020 08:49:46: #1 tags after filtering in treatment: 4732620 INFO @ Wed, 22 Apr 2020 08:49:46: #1 Redundant rate of treatment: 0.48 INFO @ Wed, 22 Apr 2020 08:49:46: #1 finished! INFO @ Wed, 22 Apr 2020 08:49:46: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 08:49:46: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 08:49:46: #2 number of paired peaks: 0 WARNING @ Wed, 22 Apr 2020 08:49:46: 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 Apr 2020 08:49:46: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6614919/SRX6614919.10_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/SRX6614919/SRX6614919.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6614919/SRX6614919.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6614919/SRX6614919.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Apr 2020 08:49:51: 14000000 INFO @ Wed, 22 Apr 2020 08:49:57: 15000000 INFO @ Wed, 22 Apr 2020 08:50:02: 16000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Apr 2020 08:50:08: 17000000 INFO @ Wed, 22 Apr 2020 08:50:13: 18000000 INFO @ Wed, 22 Apr 2020 08:50:15: #1 tag size is determined as 37 bps INFO @ Wed, 22 Apr 2020 08:50:15: #1 tag size = 37 INFO @ Wed, 22 Apr 2020 08:50:15: #1 total tags in treatment: 9094911 INFO @ Wed, 22 Apr 2020 08:50:15: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 08:50:15: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Apr 2020 08:50:15: #1 tags after filtering in treatment: 4732620 INFO @ Wed, 22 Apr 2020 08:50:15: #1 Redundant rate of treatment: 0.48 INFO @ Wed, 22 Apr 2020 08:50:15: #1 finished! INFO @ Wed, 22 Apr 2020 08:50:15: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 08:50:15: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 08:50:15: #2 number of paired peaks: 0 WARNING @ Wed, 22 Apr 2020 08:50:15: 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 Apr 2020 08:50:15: Process for pairing-model is terminated! BigWig に変換しました。 cut: /home/okishinya/chipatlas/results/sacCer3/SRX6614919/SRX6614919.20_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/SRX6614919/SRX6614919.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6614919/SRX6614919.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6614919/SRX6614919.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling