Job ID = 5791307 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 24,517,730 reads read : 49,035,460 reads written : 49,035,460 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: 00:12:35 24517730 reads; of these: 24517730 (100.00%) were paired; of these: 554877 (2.26%) aligned concordantly 0 times 21003897 (85.67%) aligned concordantly exactly 1 time 2958956 (12.07%) aligned concordantly >1 times ---- 554877 pairs aligned concordantly 0 times; of these: 53169 (9.58%) aligned discordantly 1 time ---- 501708 pairs aligned 0 times concordantly or discordantly; of these: 1003416 mates make up the pairs; of these: 720875 (71.84%) aligned 0 times 226672 (22.59%) aligned exactly 1 time 55869 (5.57%) aligned >1 times 98.53% overall alignment rate Time searching: 00:12:35 Overall time: 00:12:35 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 20 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] 4989193 / 23975066 = 0.2081 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 09:59:33: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7409563/SRX7409563.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7409563/SRX7409563.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7409563/SRX7409563.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7409563/SRX7409563.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 09:59:33: #1 read tag files... INFO @ Wed, 22 Apr 2020 09:59:33: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 09:59:38: 1000000 INFO @ Wed, 22 Apr 2020 09:59:43: 2000000 INFO @ Wed, 22 Apr 2020 09:59:48: 3000000 INFO @ Wed, 22 Apr 2020 09:59:53: 4000000 INFO @ Wed, 22 Apr 2020 09:59:58: 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 Apr 2020 10:00:03: 6000000 INFO @ Wed, 22 Apr 2020 10:00:04: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7409563/SRX7409563.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7409563/SRX7409563.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7409563/SRX7409563.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7409563/SRX7409563.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 10:00:04: #1 read tag files... INFO @ Wed, 22 Apr 2020 10:00:04: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 10:00:08: 7000000 INFO @ Wed, 22 Apr 2020 10:00:09: 1000000 INFO @ Wed, 22 Apr 2020 10:00:14: 8000000 INFO @ Wed, 22 Apr 2020 10:00:15: 2000000 INFO @ Wed, 22 Apr 2020 10:00:20: 9000000 INFO @ Wed, 22 Apr 2020 10:00:21: 3000000 INFO @ Wed, 22 Apr 2020 10:00:25: 10000000 INFO @ Wed, 22 Apr 2020 10:00:26: 4000000 INFO @ Wed, 22 Apr 2020 10:00:31: 11000000 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 10:00:32: 5000000 INFO @ Wed, 22 Apr 2020 10:00:33: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7409563/SRX7409563.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7409563/SRX7409563.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7409563/SRX7409563.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7409563/SRX7409563.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 10:00:33: #1 read tag files... INFO @ Wed, 22 Apr 2020 10:00:33: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 10:00:37: 12000000 INFO @ Wed, 22 Apr 2020 10:00:38: 6000000 INFO @ Wed, 22 Apr 2020 10:00:40: 1000000 INFO @ Wed, 22 Apr 2020 10:00:43: 13000000 INFO @ Wed, 22 Apr 2020 10:00:44: 7000000 INFO @ Wed, 22 Apr 2020 10:00:46: 2000000 INFO @ Wed, 22 Apr 2020 10:00:49: 14000000 INFO @ Wed, 22 Apr 2020 10:00:50: 8000000 INFO @ Wed, 22 Apr 2020 10:00:52: 3000000 INFO @ Wed, 22 Apr 2020 10:00:55: 15000000 INFO @ Wed, 22 Apr 2020 10:00:56: 9000000 INFO @ Wed, 22 Apr 2020 10:00:58: 4000000 INFO @ Wed, 22 Apr 2020 10:01:01: 16000000 INFO @ Wed, 22 Apr 2020 10:01:02: 10000000 INFO @ Wed, 22 Apr 2020 10:01:04: 5000000 INFO @ Wed, 22 Apr 2020 10:01:07: 17000000 INFO @ Wed, 22 Apr 2020 10:01:08: 11000000 INFO @ Wed, 22 Apr 2020 10:01:10: 6000000 INFO @ Wed, 22 Apr 2020 10:01:13: 18000000 INFO @ Wed, 22 Apr 2020 10:01:14: 12000000 INFO @ Wed, 22 Apr 2020 10:01:16: 7000000 INFO @ Wed, 22 Apr 2020 10:01:19: 19000000 INFO @ Wed, 22 Apr 2020 10:01:19: 13000000 INFO @ Wed, 22 Apr 2020 10:01:21: 8000000 INFO @ Wed, 22 Apr 2020 10:01:25: 20000000 INFO @ Wed, 22 Apr 2020 10:01:25: 14000000 INFO @ Wed, 22 Apr 2020 10:01:27: 9000000 INFO @ Wed, 22 Apr 2020 10:01:31: 21000000 INFO @ Wed, 22 Apr 2020 10:01:31: 15000000 INFO @ Wed, 22 Apr 2020 10:01:33: 10000000 INFO @ Wed, 22 Apr 2020 10:01:37: 22000000 INFO @ Wed, 22 Apr 2020 10:01:37: 16000000 INFO @ Wed, 22 Apr 2020 10:01:39: 11000000 INFO @ Wed, 22 Apr 2020 10:01:44: 17000000 INFO @ Wed, 22 Apr 2020 10:01:44: 23000000 INFO @ Wed, 22 Apr 2020 10:01:45: 12000000 INFO @ Wed, 22 Apr 2020 10:01:49: 18000000 INFO @ Wed, 22 Apr 2020 10:01:49: 24000000 INFO @ Wed, 22 Apr 2020 10:01:51: 13000000 INFO @ Wed, 22 Apr 2020 10:01:55: 19000000 INFO @ Wed, 22 Apr 2020 10:01:55: 25000000 INFO @ Wed, 22 Apr 2020 10:01:57: 14000000 INFO @ Wed, 22 Apr 2020 10:02:01: 20000000 INFO @ Wed, 22 Apr 2020 10:02:01: 26000000 INFO @ Wed, 22 Apr 2020 10:02:03: 15000000 INFO @ Wed, 22 Apr 2020 10:02:07: 27000000 INFO @ Wed, 22 Apr 2020 10:02:07: 21000000 INFO @ Wed, 22 Apr 2020 10:02:08: 16000000 INFO @ Wed, 22 Apr 2020 10:02:13: 22000000 INFO @ Wed, 22 Apr 2020 10:02:13: 28000000 INFO @ Wed, 22 Apr 2020 10:02:15: 17000000 INFO @ Wed, 22 Apr 2020 10:02:18: 23000000 INFO @ Wed, 22 Apr 2020 10:02:19: 29000000 INFO @ Wed, 22 Apr 2020 10:02:21: 18000000 INFO @ Wed, 22 Apr 2020 10:02:24: 24000000 INFO @ Wed, 22 Apr 2020 10:02:25: 30000000 INFO @ Wed, 22 Apr 2020 10:02:27: 19000000 INFO @ Wed, 22 Apr 2020 10:02:30: 25000000 INFO @ Wed, 22 Apr 2020 10:02:31: 31000000 INFO @ Wed, 22 Apr 2020 10:02:33: 20000000 INFO @ Wed, 22 Apr 2020 10:02:36: 26000000 INFO @ Wed, 22 Apr 2020 10:02:37: 32000000 INFO @ Wed, 22 Apr 2020 10:02:39: 21000000 INFO @ Wed, 22 Apr 2020 10:02:42: 27000000 INFO @ Wed, 22 Apr 2020 10:02:43: 33000000 INFO @ Wed, 22 Apr 2020 10:02:45: 22000000 INFO @ Wed, 22 Apr 2020 10:02:48: 28000000 INFO @ Wed, 22 Apr 2020 10:02:49: 34000000 INFO @ Wed, 22 Apr 2020 10:02:51: 23000000 INFO @ Wed, 22 Apr 2020 10:02:54: 29000000 INFO @ Wed, 22 Apr 2020 10:02:55: 35000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Apr 2020 10:02:57: 24000000 INFO @ Wed, 22 Apr 2020 10:03:00: 30000000 INFO @ Wed, 22 Apr 2020 10:03:01: 36000000 INFO @ Wed, 22 Apr 2020 10:03:03: 25000000 INFO @ Wed, 22 Apr 2020 10:03:05: 31000000 INFO @ Wed, 22 Apr 2020 10:03:07: 37000000 INFO @ Wed, 22 Apr 2020 10:03:09: 26000000 INFO @ Wed, 22 Apr 2020 10:03:11: 32000000 BigWig に変換しました。 INFO @ Wed, 22 Apr 2020 10:03:13: 38000000 INFO @ Wed, 22 Apr 2020 10:03:15: 27000000 INFO @ Wed, 22 Apr 2020 10:03:15: #1 tag size is determined as 50 bps INFO @ Wed, 22 Apr 2020 10:03:15: #1 tag size = 50 INFO @ Wed, 22 Apr 2020 10:03:15: #1 total tags in treatment: 18975072 INFO @ Wed, 22 Apr 2020 10:03:15: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 10:03:15: #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 10:03:15: #1 tags after filtering in treatment: 11969159 INFO @ Wed, 22 Apr 2020 10:03:15: #1 Redundant rate of treatment: 0.37 INFO @ Wed, 22 Apr 2020 10:03:15: #1 finished! INFO @ Wed, 22 Apr 2020 10:03:15: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 10:03:15: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 10:03:16: #2 number of paired peaks: 0 WARNING @ Wed, 22 Apr 2020 10:03:16: 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 10:03:16: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7409563/SRX7409563.05_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/SRX7409563/SRX7409563.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409563/SRX7409563.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409563/SRX7409563.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Apr 2020 10:03:17: 33000000 INFO @ Wed, 22 Apr 2020 10:03:20: 28000000 INFO @ Wed, 22 Apr 2020 10:03:23: 34000000 INFO @ Wed, 22 Apr 2020 10:03:26: 29000000 INFO @ Wed, 22 Apr 2020 10:03:28: 35000000 INFO @ Wed, 22 Apr 2020 10:03:32: 30000000 INFO @ Wed, 22 Apr 2020 10:03:35: 36000000 INFO @ Wed, 22 Apr 2020 10:03:37: 31000000 INFO @ Wed, 22 Apr 2020 10:03:40: 37000000 INFO @ Wed, 22 Apr 2020 10:03:43: 32000000 INFO @ Wed, 22 Apr 2020 10:03:46: 38000000 INFO @ Wed, 22 Apr 2020 10:03:48: #1 tag size is determined as 50 bps INFO @ Wed, 22 Apr 2020 10:03:48: #1 tag size = 50 INFO @ Wed, 22 Apr 2020 10:03:48: #1 total tags in treatment: 18975072 INFO @ Wed, 22 Apr 2020 10:03:48: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 10:03:48: #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 10:03:48: #1 tags after filtering in treatment: 11969159 INFO @ Wed, 22 Apr 2020 10:03:48: #1 Redundant rate of treatment: 0.37 INFO @ Wed, 22 Apr 2020 10:03:48: #1 finished! INFO @ Wed, 22 Apr 2020 10:03:48: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 10:03:48: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 10:03:49: 33000000 INFO @ Wed, 22 Apr 2020 10:03:49: #2 number of paired peaks: 0 WARNING @ Wed, 22 Apr 2020 10:03:49: 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 10:03:49: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7409563/SRX7409563.10_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/SRX7409563/SRX7409563.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409563/SRX7409563.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409563/SRX7409563.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Apr 2020 10:03:54: 34000000 INFO @ Wed, 22 Apr 2020 10:03:59: 35000000 INFO @ Wed, 22 Apr 2020 10:04:05: 36000000 INFO @ Wed, 22 Apr 2020 10:04:10: 37000000 INFO @ Wed, 22 Apr 2020 10:04:15: 38000000 INFO @ Wed, 22 Apr 2020 10:04:17: #1 tag size is determined as 50 bps INFO @ Wed, 22 Apr 2020 10:04:17: #1 tag size = 50 INFO @ Wed, 22 Apr 2020 10:04:17: #1 total tags in treatment: 18975072 INFO @ Wed, 22 Apr 2020 10:04:17: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 10:04:17: #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 10:04:17: #1 tags after filtering in treatment: 11969159 INFO @ Wed, 22 Apr 2020 10:04:17: #1 Redundant rate of treatment: 0.37 INFO @ Wed, 22 Apr 2020 10:04:17: #1 finished! INFO @ Wed, 22 Apr 2020 10:04:17: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 10:04:17: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 10:04:18: #2 number of paired peaks: 0 WARNING @ Wed, 22 Apr 2020 10:04:18: 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 10:04:18: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7409563/SRX7409563.20_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/SRX7409563/SRX7409563.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409563/SRX7409563.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409563/SRX7409563.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling