Job ID = 6528103 SRX = SRX4669033 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T14:15:50 prefetch.2.10.7: 1) Downloading 'SRR7817558'... 2020-06-29T14:15:50 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T14:16:34 prefetch.2.10.7: HTTPS download succeed 2020-06-29T14:16:34 prefetch.2.10.7: 'SRR7817558' is valid 2020-06-29T14:16:34 prefetch.2.10.7: 1) 'SRR7817558' was downloaded successfully 2020-06-29T14:16:34 prefetch.2.10.7: 'SRR7817558' has 0 unresolved dependencies Read 8511896 spots for SRR7817558/SRR7817558.sra Written 8511896 spots for SRR7817558/SRR7817558.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: 00:02:50 8511896 reads; of these: 8511896 (100.00%) were unpaired; of these: 216186 (2.54%) aligned 0 times 5929386 (69.66%) aligned exactly 1 time 2366324 (27.80%) aligned >1 times 97.46% overall alignment rate Time searching: 00:02:50 Overall time: 00:02:50 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] 809616 / 8295710 = 0.0976 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 23:24:39: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX4669033/SRX4669033.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX4669033/SRX4669033.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX4669033/SRX4669033.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX4669033/SRX4669033.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 23:24:39: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:24:39: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:24:45: 1000000 INFO @ Mon, 29 Jun 2020 23:24:51: 2000000 INFO @ Mon, 29 Jun 2020 23:24:57: 3000000 INFO @ Mon, 29 Jun 2020 23:25:03: 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 23:25:09: 5000000 INFO @ Mon, 29 Jun 2020 23:25:09: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX4669033/SRX4669033.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX4669033/SRX4669033.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX4669033/SRX4669033.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX4669033/SRX4669033.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 23:25:09: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:25:09: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:25:16: 6000000 INFO @ Mon, 29 Jun 2020 23:25:17: 1000000 INFO @ Mon, 29 Jun 2020 23:25:22: 7000000 INFO @ Mon, 29 Jun 2020 23:25:23: 2000000 INFO @ Mon, 29 Jun 2020 23:25:25: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 23:25:25: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 23:25:25: #1 total tags in treatment: 7486094 INFO @ Mon, 29 Jun 2020 23:25:25: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:25:25: #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 23:25:26: #1 tags after filtering in treatment: 7486094 INFO @ Mon, 29 Jun 2020 23:25:26: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:25:26: #1 finished! INFO @ Mon, 29 Jun 2020 23:25:26: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:25:26: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:25:26: #2 number of paired peaks: 45 WARNING @ Mon, 29 Jun 2020 23:25:26: Too few paired peaks (45) 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 23:25:26: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX4669033/SRX4669033.05_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/SRX4669033/SRX4669033.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX4669033/SRX4669033.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX4669033/SRX4669033.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:25:29: 3000000 INFO @ Mon, 29 Jun 2020 23:25:35: 4000000 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 23:25:39: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX4669033/SRX4669033.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX4669033/SRX4669033.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX4669033/SRX4669033.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX4669033/SRX4669033.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 23:25:39: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:25:39: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:25:42: 5000000 INFO @ Mon, 29 Jun 2020 23:25:46: 1000000 INFO @ Mon, 29 Jun 2020 23:25:49: 6000000 INFO @ Mon, 29 Jun 2020 23:25:53: 2000000 INFO @ Mon, 29 Jun 2020 23:25:55: 7000000 INFO @ Mon, 29 Jun 2020 23:25:58: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 23:25:58: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 23:25:58: #1 total tags in treatment: 7486094 INFO @ Mon, 29 Jun 2020 23:25:58: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:25:58: #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 23:25:58: #1 tags after filtering in treatment: 7486094 INFO @ Mon, 29 Jun 2020 23:25:58: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:25:58: #1 finished! INFO @ Mon, 29 Jun 2020 23:25:58: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:25:58: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:25:59: #2 number of paired peaks: 45 WARNING @ Mon, 29 Jun 2020 23:25:59: Too few paired peaks (45) 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 23:25:59: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX4669033/SRX4669033.10_peaks.narrowPeak: No such file or directory INFO @ Mon, 29 Jun 2020 23:25:59: 3000000 pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX4669033/SRX4669033.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX4669033/SRX4669033.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX4669033/SRX4669033.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:26:05: 4000000 INFO @ Mon, 29 Jun 2020 23:26:11: 5000000 INFO @ Mon, 29 Jun 2020 23:26:17: 6000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 23:26:23: 7000000 INFO @ Mon, 29 Jun 2020 23:26:26: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 23:26:26: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 23:26:26: #1 total tags in treatment: 7486094 INFO @ Mon, 29 Jun 2020 23:26:26: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:26:26: #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 23:26:26: #1 tags after filtering in treatment: 7486094 INFO @ Mon, 29 Jun 2020 23:26:26: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:26:26: #1 finished! INFO @ Mon, 29 Jun 2020 23:26:26: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:26:26: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:26:27: #2 number of paired peaks: 45 WARNING @ Mon, 29 Jun 2020 23:26:27: Too few paired peaks (45) 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 23:26:27: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX4669033/SRX4669033.20_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/SRX4669033/SRX4669033.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX4669033/SRX4669033.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX4669033/SRX4669033.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。