Job ID = 6527475 SRX = SRX025468 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T12:44:39 prefetch.2.10.7: 1) Downloading 'SRR063863'... 2020-06-29T12:44:39 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T12:45:46 prefetch.2.10.7: HTTPS download succeed 2020-06-29T12:45:47 prefetch.2.10.7: 'SRR063863' is valid 2020-06-29T12:45:47 prefetch.2.10.7: 1) 'SRR063863' was downloaded successfully Read 23998587 spots for SRR063863/SRR063863.sra Written 23998587 spots for SRR063863/SRR063863.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: 00:05:24 23998587 reads; of these: 23998587 (100.00%) were unpaired; of these: 1779893 (7.42%) aligned 0 times 18225662 (75.94%) aligned exactly 1 time 3993032 (16.64%) aligned >1 times 92.58% overall alignment rate Time searching: 00:05:24 Overall time: 00:05:24 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 15 sequences. [bam_sort_core] merging from 8 files... [bam_rmdupse_core] 2447818 / 22218694 = 0.1102 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 @ Mon, 29 Jun 2020 21:59:43: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX025468/SRX025468.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX025468/SRX025468.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX025468/SRX025468.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX025468/SRX025468.bam'] # control file = None # effective genome size = 1.20e+08 # 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 @ Mon, 29 Jun 2020 21:59:43: #1 read tag files... INFO @ Mon, 29 Jun 2020 21:59:43: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 21:59:49: 1000000 INFO @ Mon, 29 Jun 2020 21:59:54: 2000000 INFO @ Mon, 29 Jun 2020 22:00:00: 3000000 INFO @ Mon, 29 Jun 2020 22:00:05: 4000000 INFO @ Mon, 29 Jun 2020 22:00:11: 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 @ Mon, 29 Jun 2020 22:00:13: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX025468/SRX025468.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX025468/SRX025468.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX025468/SRX025468.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX025468/SRX025468.bam'] # control file = None # effective genome size = 1.20e+08 # 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 @ Mon, 29 Jun 2020 22:00:13: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:00:13: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:00:16: 6000000 INFO @ Mon, 29 Jun 2020 22:00:18: 1000000 INFO @ Mon, 29 Jun 2020 22:00:22: 7000000 INFO @ Mon, 29 Jun 2020 22:00:23: 2000000 INFO @ Mon, 29 Jun 2020 22:00:28: 8000000 INFO @ Mon, 29 Jun 2020 22:00:29: 3000000 INFO @ Mon, 29 Jun 2020 22:00:34: 9000000 INFO @ Mon, 29 Jun 2020 22:00:34: 4000000 INFO @ Mon, 29 Jun 2020 22:00:39: 5000000 INFO @ Mon, 29 Jun 2020 22:00:39: 10000000 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 @ Mon, 29 Jun 2020 22:00:43: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX025468/SRX025468.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX025468/SRX025468.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX025468/SRX025468.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX025468/SRX025468.bam'] # control file = None # effective genome size = 1.20e+08 # 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 @ Mon, 29 Jun 2020 22:00:43: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:00:43: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:00:44: 6000000 INFO @ Mon, 29 Jun 2020 22:00:45: 11000000 INFO @ Mon, 29 Jun 2020 22:00:49: 1000000 INFO @ Mon, 29 Jun 2020 22:00:50: 7000000 INFO @ Mon, 29 Jun 2020 22:00:51: 12000000 INFO @ Mon, 29 Jun 2020 22:00:55: 2000000 INFO @ Mon, 29 Jun 2020 22:00:55: 8000000 INFO @ Mon, 29 Jun 2020 22:00:57: 13000000 INFO @ Mon, 29 Jun 2020 22:01:00: 9000000 INFO @ Mon, 29 Jun 2020 22:01:01: 3000000 INFO @ Mon, 29 Jun 2020 22:01:03: 14000000 INFO @ Mon, 29 Jun 2020 22:01:06: 10000000 INFO @ Mon, 29 Jun 2020 22:01:07: 4000000 INFO @ Mon, 29 Jun 2020 22:01:09: 15000000 INFO @ Mon, 29 Jun 2020 22:01:11: 11000000 INFO @ Mon, 29 Jun 2020 22:01:13: 5000000 INFO @ Mon, 29 Jun 2020 22:01:15: 16000000 INFO @ Mon, 29 Jun 2020 22:01:16: 12000000 INFO @ Mon, 29 Jun 2020 22:01:19: 6000000 INFO @ Mon, 29 Jun 2020 22:01:21: 17000000 INFO @ Mon, 29 Jun 2020 22:01:22: 13000000 INFO @ Mon, 29 Jun 2020 22:01:25: 7000000 INFO @ Mon, 29 Jun 2020 22:01:27: 18000000 INFO @ Mon, 29 Jun 2020 22:01:27: 14000000 INFO @ Mon, 29 Jun 2020 22:01:31: 8000000 INFO @ Mon, 29 Jun 2020 22:01:33: 19000000 INFO @ Mon, 29 Jun 2020 22:01:33: 15000000 INFO @ Mon, 29 Jun 2020 22:01:37: 9000000 INFO @ Mon, 29 Jun 2020 22:01:37: #1 tag size is determined as 36 bps INFO @ Mon, 29 Jun 2020 22:01:37: #1 tag size = 36 INFO @ Mon, 29 Jun 2020 22:01:37: #1 total tags in treatment: 19770876 INFO @ Mon, 29 Jun 2020 22:01:37: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:01:37: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 29 Jun 2020 22:01:37: #1 tags after filtering in treatment: 19770876 INFO @ Mon, 29 Jun 2020 22:01:37: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:01:37: #1 finished! INFO @ Mon, 29 Jun 2020 22:01:37: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:01:37: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:01:38: 16000000 INFO @ Mon, 29 Jun 2020 22:01:39: #2 number of paired peaks: 31 WARNING @ Mon, 29 Jun 2020 22:01:39: Too few paired peaks (31) 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 @ Mon, 29 Jun 2020 22:01:39: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX025468/SRX025468.05_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/dm3/SRX025468/SRX025468.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX025468/SRX025468.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX025468/SRX025468.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:01:43: 10000000 INFO @ Mon, 29 Jun 2020 22:01:44: 17000000 INFO @ Mon, 29 Jun 2020 22:01:49: 11000000 INFO @ Mon, 29 Jun 2020 22:01:49: 18000000 INFO @ Mon, 29 Jun 2020 22:01:55: 12000000 INFO @ Mon, 29 Jun 2020 22:01:55: 19000000 INFO @ Mon, 29 Jun 2020 22:01:59: #1 tag size is determined as 36 bps INFO @ Mon, 29 Jun 2020 22:01:59: #1 tag size = 36 INFO @ Mon, 29 Jun 2020 22:01:59: #1 total tags in treatment: 19770876 INFO @ Mon, 29 Jun 2020 22:01:59: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:01:59: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 29 Jun 2020 22:01:59: #1 tags after filtering in treatment: 19770876 INFO @ Mon, 29 Jun 2020 22:01:59: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:01:59: #1 finished! INFO @ Mon, 29 Jun 2020 22:01:59: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:01:59: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:02:01: 13000000 INFO @ Mon, 29 Jun 2020 22:02:01: #2 number of paired peaks: 31 WARNING @ Mon, 29 Jun 2020 22:02:01: Too few paired peaks (31) 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 @ Mon, 29 Jun 2020 22:02:01: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX025468/SRX025468.10_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/dm3/SRX025468/SRX025468.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX025468/SRX025468.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX025468/SRX025468.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:02:06: 14000000 INFO @ Mon, 29 Jun 2020 22:02:12: 15000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 22:02:18: 16000000 INFO @ Mon, 29 Jun 2020 22:02:23: 17000000 INFO @ Mon, 29 Jun 2020 22:02:29: 18000000 INFO @ Mon, 29 Jun 2020 22:02:35: 19000000 INFO @ Mon, 29 Jun 2020 22:02:39: #1 tag size is determined as 36 bps INFO @ Mon, 29 Jun 2020 22:02:39: #1 tag size = 36 INFO @ Mon, 29 Jun 2020 22:02:39: #1 total tags in treatment: 19770876 INFO @ Mon, 29 Jun 2020 22:02:39: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:02:39: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 29 Jun 2020 22:02:39: #1 tags after filtering in treatment: 19770876 INFO @ Mon, 29 Jun 2020 22:02:39: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:02:39: #1 finished! INFO @ Mon, 29 Jun 2020 22:02:39: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:02:39: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:02:41: #2 number of paired peaks: 31 WARNING @ Mon, 29 Jun 2020 22:02:41: Too few paired peaks (31) 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 @ Mon, 29 Jun 2020 22:02:41: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX025468/SRX025468.20_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/dm3/SRX025468/SRX025468.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX025468/SRX025468.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX025468/SRX025468.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。