Job ID = 6528161 SRX = SRX4933870 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T14:41:57 prefetch.2.10.7: 1) Downloading 'SRR8107259'... 2020-06-29T14:41:57 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T14:43:02 prefetch.2.10.7: HTTPS download succeed 2020-06-29T14:43:03 prefetch.2.10.7: 'SRR8107259' is valid 2020-06-29T14:43:03 prefetch.2.10.7: 1) 'SRR8107259' was downloaded successfully Read 10017639 spots for SRR8107259/SRR8107259.sra Written 10017639 spots for SRR8107259/SRR8107259.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: 00:03:49 10017639 reads; of these: 10017639 (100.00%) were unpaired; of these: 260075 (2.60%) aligned 0 times 6303684 (62.93%) aligned exactly 1 time 3453880 (34.48%) aligned >1 times 97.40% overall alignment rate Time searching: 00:03:49 Overall time: 00:03:49 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_rmdupse_core] 681244 / 9757564 = 0.0698 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 23:52:26: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX4933870/SRX4933870.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX4933870/SRX4933870.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX4933870/SRX4933870.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX4933870/SRX4933870.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 23:52:26: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:52:26: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:52:32: 1000000 INFO @ Mon, 29 Jun 2020 23:52:39: 2000000 INFO @ Mon, 29 Jun 2020 23:52:45: 3000000 INFO @ Mon, 29 Jun 2020 23:52:51: 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 @ Mon, 29 Jun 2020 23:52:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX4933870/SRX4933870.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX4933870/SRX4933870.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX4933870/SRX4933870.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX4933870/SRX4933870.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 23:52:56: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:52:56: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:52:57: 5000000 INFO @ Mon, 29 Jun 2020 23:53:02: 1000000 INFO @ Mon, 29 Jun 2020 23:53:04: 6000000 INFO @ Mon, 29 Jun 2020 23:53:08: 2000000 INFO @ Mon, 29 Jun 2020 23:53:10: 7000000 INFO @ Mon, 29 Jun 2020 23:53:14: 3000000 INFO @ Mon, 29 Jun 2020 23:53:16: 8000000 INFO @ Mon, 29 Jun 2020 23:53:20: 4000000 INFO @ Mon, 29 Jun 2020 23:53:23: 9000000 INFO @ Mon, 29 Jun 2020 23:53:23: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 23:53:23: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 23:53:23: #1 total tags in treatment: 9076320 INFO @ Mon, 29 Jun 2020 23:53:23: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:53:23: #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 23:53:23: #1 tags after filtering in treatment: 9076320 INFO @ Mon, 29 Jun 2020 23:53:23: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:53:23: #1 finished! INFO @ Mon, 29 Jun 2020 23:53:23: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:53:23: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:53:24: #2 number of paired peaks: 26 WARNING @ Mon, 29 Jun 2020 23:53:24: Too few paired peaks (26) 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 23:53:24: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX4933870/SRX4933870.05_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/dm3/SRX4933870/SRX4933870.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX4933870/SRX4933870.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX4933870/SRX4933870.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling 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 23:53:25: 5000000 INFO @ Mon, 29 Jun 2020 23:53:26: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX4933870/SRX4933870.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX4933870/SRX4933870.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX4933870/SRX4933870.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX4933870/SRX4933870.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 23:53:26: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:53:26: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:53:31: 6000000 INFO @ Mon, 29 Jun 2020 23:53:33: 1000000 INFO @ Mon, 29 Jun 2020 23:53:37: 7000000 INFO @ Mon, 29 Jun 2020 23:53:40: 2000000 INFO @ Mon, 29 Jun 2020 23:53:43: 8000000 INFO @ Mon, 29 Jun 2020 23:53:46: 3000000 INFO @ Mon, 29 Jun 2020 23:53:49: 9000000 INFO @ Mon, 29 Jun 2020 23:53:49: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 23:53:49: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 23:53:49: #1 total tags in treatment: 9076320 INFO @ Mon, 29 Jun 2020 23:53:49: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:53:49: #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 23:53:49: #1 tags after filtering in treatment: 9076320 INFO @ Mon, 29 Jun 2020 23:53:49: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:53:49: #1 finished! INFO @ Mon, 29 Jun 2020 23:53:49: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:53:49: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:53:50: #2 number of paired peaks: 26 WARNING @ Mon, 29 Jun 2020 23:53:50: Too few paired peaks (26) 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 23:53:50: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX4933870/SRX4933870.10_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/SRX4933870/SRX4933870.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX4933870/SRX4933870.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX4933870/SRX4933870.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:53:53: 4000000 INFO @ Mon, 29 Jun 2020 23:53:59: 5000000 INFO @ Mon, 29 Jun 2020 23:54:05: 6000000 INFO @ Mon, 29 Jun 2020 23:54:11: 7000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 23:54:18: 8000000 INFO @ Mon, 29 Jun 2020 23:54:24: 9000000 INFO @ Mon, 29 Jun 2020 23:54:24: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 23:54:24: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 23:54:24: #1 total tags in treatment: 9076320 INFO @ Mon, 29 Jun 2020 23:54:24: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:54:24: #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 23:54:24: #1 tags after filtering in treatment: 9076320 INFO @ Mon, 29 Jun 2020 23:54:24: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:54:24: #1 finished! INFO @ Mon, 29 Jun 2020 23:54:24: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:54:24: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:54:25: #2 number of paired peaks: 26 WARNING @ Mon, 29 Jun 2020 23:54:25: Too few paired peaks (26) 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 23:54:25: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX4933870/SRX4933870.20_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/SRX4933870/SRX4933870.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX4933870/SRX4933870.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX4933870/SRX4933870.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。