Job ID = 7117668 SRX = SRX8639548 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-07-22T06:42:57 prefetch.2.10.7: 1) Downloading 'SRR12116986'... 2020-07-22T06:42:57 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T06:45:52 prefetch.2.10.7: HTTPS download succeed 2020-07-22T06:45:52 prefetch.2.10.7: 1) 'SRR12116986' was downloaded successfully 2020-07-22T06:45:52 prefetch.2.10.7: 'SRR12116986' has 0 unresolved dependencies Read 21460396 spots for SRR12116986/SRR12116986.sra Written 21460396 spots for SRR12116986/SRR12116986.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: 00:10:25 21460396 reads; of these: 21460396 (100.00%) were paired; of these: 3806638 (17.74%) aligned concordantly 0 times 15513973 (72.29%) aligned concordantly exactly 1 time 2139785 (9.97%) aligned concordantly >1 times ---- 3806638 pairs aligned concordantly 0 times; of these: 190252 (5.00%) aligned discordantly 1 time ---- 3616386 pairs aligned 0 times concordantly or discordantly; of these: 7232772 mates make up the pairs; of these: 7027938 (97.17%) aligned 0 times 126524 (1.75%) aligned exactly 1 time 78310 (1.08%) aligned >1 times 83.63% overall alignment rate Time searching: 00:10:25 Overall time: 00:10:25 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 16 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] 324504 / 17814470 = 0.0182 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 16:05:31: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639548/SRX8639548.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639548/SRX8639548.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639548/SRX8639548.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639548/SRX8639548.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 16:05:31: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:05:31: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:05:38: 1000000 INFO @ Wed, 22 Jul 2020 16:05:45: 2000000 INFO @ Wed, 22 Jul 2020 16:05:52: 3000000 INFO @ Wed, 22 Jul 2020 16:05:58: 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 16:06:01: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639548/SRX8639548.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639548/SRX8639548.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639548/SRX8639548.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639548/SRX8639548.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 16:06:01: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:06:01: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:06:06: 5000000 INFO @ Wed, 22 Jul 2020 16:06:09: 1000000 INFO @ Wed, 22 Jul 2020 16:06:13: 6000000 INFO @ Wed, 22 Jul 2020 16:06:17: 2000000 INFO @ Wed, 22 Jul 2020 16:06:21: 7000000 INFO @ Wed, 22 Jul 2020 16:06:24: 3000000 INFO @ Wed, 22 Jul 2020 16:06:28: 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 16:06:31: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639548/SRX8639548.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639548/SRX8639548.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639548/SRX8639548.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639548/SRX8639548.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 16:06:31: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:06:31: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:06:32: 4000000 INFO @ Wed, 22 Jul 2020 16:06:36: 9000000 INFO @ Wed, 22 Jul 2020 16:06:39: 1000000 INFO @ Wed, 22 Jul 2020 16:06:40: 5000000 INFO @ Wed, 22 Jul 2020 16:06:44: 10000000 INFO @ Wed, 22 Jul 2020 16:06:47: 2000000 INFO @ Wed, 22 Jul 2020 16:06:47: 6000000 INFO @ Wed, 22 Jul 2020 16:06:52: 11000000 INFO @ Wed, 22 Jul 2020 16:06:54: 3000000 INFO @ Wed, 22 Jul 2020 16:06:55: 7000000 INFO @ Wed, 22 Jul 2020 16:06:59: 12000000 INFO @ Wed, 22 Jul 2020 16:07:02: 4000000 INFO @ Wed, 22 Jul 2020 16:07:02: 8000000 INFO @ Wed, 22 Jul 2020 16:07:07: 13000000 INFO @ Wed, 22 Jul 2020 16:07:10: 5000000 INFO @ Wed, 22 Jul 2020 16:07:10: 9000000 INFO @ Wed, 22 Jul 2020 16:07:15: 14000000 INFO @ Wed, 22 Jul 2020 16:07:17: 6000000 INFO @ Wed, 22 Jul 2020 16:07:18: 10000000 INFO @ Wed, 22 Jul 2020 16:07:23: 15000000 INFO @ Wed, 22 Jul 2020 16:07:25: 7000000 INFO @ Wed, 22 Jul 2020 16:07:25: 11000000 INFO @ Wed, 22 Jul 2020 16:07:31: 16000000 INFO @ Wed, 22 Jul 2020 16:07:32: 8000000 INFO @ Wed, 22 Jul 2020 16:07:33: 12000000 INFO @ Wed, 22 Jul 2020 16:07:39: 17000000 INFO @ Wed, 22 Jul 2020 16:07:40: 9000000 INFO @ Wed, 22 Jul 2020 16:07:40: 13000000 INFO @ Wed, 22 Jul 2020 16:07:47: 18000000 INFO @ Wed, 22 Jul 2020 16:07:47: 10000000 INFO @ Wed, 22 Jul 2020 16:07:48: 14000000 INFO @ Wed, 22 Jul 2020 16:07:55: 19000000 INFO @ Wed, 22 Jul 2020 16:07:55: 11000000 INFO @ Wed, 22 Jul 2020 16:07:55: 15000000 INFO @ Wed, 22 Jul 2020 16:08:02: 12000000 INFO @ Wed, 22 Jul 2020 16:08:03: 16000000 INFO @ Wed, 22 Jul 2020 16:08:03: 20000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 16:08:10: 13000000 INFO @ Wed, 22 Jul 2020 16:08:10: 17000000 INFO @ Wed, 22 Jul 2020 16:08:11: 21000000 INFO @ Wed, 22 Jul 2020 16:08:17: 14000000 INFO @ Wed, 22 Jul 2020 16:08:17: 18000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 16:08:19: 22000000 INFO @ Wed, 22 Jul 2020 16:08:25: 15000000 INFO @ Wed, 22 Jul 2020 16:08:25: 19000000 INFO @ Wed, 22 Jul 2020 16:08:28: 23000000 INFO @ Wed, 22 Jul 2020 16:08:32: 16000000 INFO @ Wed, 22 Jul 2020 16:08:32: 20000000 INFO @ Wed, 22 Jul 2020 16:08:35: 24000000 INFO @ Wed, 22 Jul 2020 16:08:40: 17000000 INFO @ Wed, 22 Jul 2020 16:08:40: 21000000 INFO @ Wed, 22 Jul 2020 16:08:43: 25000000 INFO @ Wed, 22 Jul 2020 16:08:47: 18000000 INFO @ Wed, 22 Jul 2020 16:08:47: 22000000 INFO @ Wed, 22 Jul 2020 16:08:51: 26000000 INFO @ Wed, 22 Jul 2020 16:08:54: 19000000 INFO @ Wed, 22 Jul 2020 16:08:55: 23000000 INFO @ Wed, 22 Jul 2020 16:08:59: 27000000 INFO @ Wed, 22 Jul 2020 16:09:02: 20000000 INFO @ Wed, 22 Jul 2020 16:09:02: 24000000 INFO @ Wed, 22 Jul 2020 16:09:07: 28000000 INFO @ Wed, 22 Jul 2020 16:09:09: 21000000 INFO @ Wed, 22 Jul 2020 16:09:09: 25000000 INFO @ Wed, 22 Jul 2020 16:09:15: 29000000 INFO @ Wed, 22 Jul 2020 16:09:16: 22000000 INFO @ Wed, 22 Jul 2020 16:09:16: 26000000 INFO @ Wed, 22 Jul 2020 16:09:23: 30000000 INFO @ Wed, 22 Jul 2020 16:09:24: 27000000 INFO @ Wed, 22 Jul 2020 16:09:24: 23000000 INFO @ Wed, 22 Jul 2020 16:09:30: 31000000 INFO @ Wed, 22 Jul 2020 16:09:31: 28000000 INFO @ Wed, 22 Jul 2020 16:09:31: 24000000 INFO @ Wed, 22 Jul 2020 16:09:38: 32000000 INFO @ Wed, 22 Jul 2020 16:09:38: 29000000 INFO @ Wed, 22 Jul 2020 16:09:38: 25000000 INFO @ Wed, 22 Jul 2020 16:09:45: 30000000 INFO @ Wed, 22 Jul 2020 16:09:45: 33000000 INFO @ Wed, 22 Jul 2020 16:09:46: 26000000 INFO @ Wed, 22 Jul 2020 16:09:52: 31000000 INFO @ Wed, 22 Jul 2020 16:09:53: 27000000 INFO @ Wed, 22 Jul 2020 16:09:53: 34000000 INFO @ Wed, 22 Jul 2020 16:09:59: 32000000 INFO @ Wed, 22 Jul 2020 16:10:00: 28000000 INFO @ Wed, 22 Jul 2020 16:10:01: 35000000 INFO @ Wed, 22 Jul 2020 16:10:03: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 16:10:03: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 16:10:03: #1 total tags in treatment: 17329454 INFO @ Wed, 22 Jul 2020 16:10:03: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:10:03: #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 16:10:03: #1 tags after filtering in treatment: 11607355 INFO @ Wed, 22 Jul 2020 16:10:03: #1 Redundant rate of treatment: 0.33 INFO @ Wed, 22 Jul 2020 16:10:03: #1 finished! INFO @ Wed, 22 Jul 2020 16:10:03: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:10:03: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:10:04: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:10:04: 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 16:10:04: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639548/SRX8639548.05_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/SRX8639548/SRX8639548.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639548/SRX8639548.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639548/SRX8639548.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 16:10:06: 33000000 INFO @ Wed, 22 Jul 2020 16:10:07: 29000000 INFO @ Wed, 22 Jul 2020 16:10:12: 34000000 INFO @ Wed, 22 Jul 2020 16:10:13: 30000000 INFO @ Wed, 22 Jul 2020 16:10:19: 35000000 INFO @ Wed, 22 Jul 2020 16:10:20: 31000000 INFO @ Wed, 22 Jul 2020 16:10:20: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 16:10:20: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 16:10:20: #1 total tags in treatment: 17329454 INFO @ Wed, 22 Jul 2020 16:10:20: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:10:20: #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 16:10:20: #1 tags after filtering in treatment: 11607355 INFO @ Wed, 22 Jul 2020 16:10:20: #1 Redundant rate of treatment: 0.33 INFO @ Wed, 22 Jul 2020 16:10:20: #1 finished! INFO @ Wed, 22 Jul 2020 16:10:20: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:10:20: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:10:21: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:10:21: 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 16:10:21: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639548/SRX8639548.10_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/SRX8639548/SRX8639548.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639548/SRX8639548.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639548/SRX8639548.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 16:10:26: 32000000 INFO @ Wed, 22 Jul 2020 16:10:31: 33000000 INFO @ Wed, 22 Jul 2020 16:10:37: 34000000 INFO @ Wed, 22 Jul 2020 16:10:43: 35000000 INFO @ Wed, 22 Jul 2020 16:10:44: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 16:10:44: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 16:10:44: #1 total tags in treatment: 17329454 INFO @ Wed, 22 Jul 2020 16:10:44: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:10:44: #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 16:10:44: #1 tags after filtering in treatment: 11607355 INFO @ Wed, 22 Jul 2020 16:10:44: #1 Redundant rate of treatment: 0.33 INFO @ Wed, 22 Jul 2020 16:10:44: #1 finished! INFO @ Wed, 22 Jul 2020 16:10:44: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:10:44: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:10:45: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:10:45: 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 16:10:45: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639548/SRX8639548.20_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/SRX8639548/SRX8639548.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639548/SRX8639548.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639548/SRX8639548.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling