Job ID = 6528125 SRX = SRX474522 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T14:12:20 prefetch.2.10.7: 1) Downloading 'SRR1174369'... 2020-06-29T14:12:20 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T14:13:08 prefetch.2.10.7: HTTPS download succeed 2020-06-29T14:13:09 prefetch.2.10.7: 'SRR1174369' is valid 2020-06-29T14:13:09 prefetch.2.10.7: 1) 'SRR1174369' was downloaded successfully 2020-06-29T14:14:01 prefetch.2.10.7: 'SRR1174369' has 10 unresolved dependencies 2020-06-29T14:14:01 prefetch.2.10.7: 2) Downloading 'ncbi-acc:AE013599.4?vdb-ctx=refseq'... 2020-06-29T14:14:01 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T14:14:18 prefetch.2.10.7: HTTPS download succeed 2020-06-29T14:14:18 prefetch.2.10.7: 2) 'ncbi-acc:AE013599.4?vdb-ctx=refseq' was downloaded successfully 2020-06-29T14:14:18 prefetch.2.10.7: 3) Downloading 'ncbi-acc:AE014134.5?vdb-ctx=refseq'... 2020-06-29T14:14:18 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T14:14:32 prefetch.2.10.7: HTTPS download succeed 2020-06-29T14:14:32 prefetch.2.10.7: 3) 'ncbi-acc:AE014134.5?vdb-ctx=refseq' was downloaded successfully 2020-06-29T14:14:32 prefetch.2.10.7: 4) Downloading 'ncbi-acc:AE014135.3?vdb-ctx=refseq'... 2020-06-29T14:14:32 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T14:14:40 prefetch.2.10.7: HTTPS download succeed 2020-06-29T14:14:40 prefetch.2.10.7: 4) 'ncbi-acc:AE014135.3?vdb-ctx=refseq' was downloaded successfully 2020-06-29T14:14:40 prefetch.2.10.7: 5) Downloading 'ncbi-acc:AE014296.4?vdb-ctx=refseq'... 2020-06-29T14:14:40 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T14:14:53 prefetch.2.10.7: HTTPS download succeed 2020-06-29T14:14:53 prefetch.2.10.7: 5) 'ncbi-acc:AE014296.4?vdb-ctx=refseq' was downloaded successfully 2020-06-29T14:14:53 prefetch.2.10.7: 6) Downloading 'ncbi-acc:AE014297.2?vdb-ctx=refseq'... 2020-06-29T14:14:53 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T14:15:07 prefetch.2.10.7: HTTPS download succeed 2020-06-29T14:15:07 prefetch.2.10.7: 6) 'ncbi-acc:AE014297.2?vdb-ctx=refseq' was downloaded successfully 2020-06-29T14:15:07 prefetch.2.10.7: 7) Downloading 'ncbi-acc:AE014298.4?vdb-ctx=refseq'... 2020-06-29T14:15:07 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T14:15:20 prefetch.2.10.7: HTTPS download succeed 2020-06-29T14:15:20 prefetch.2.10.7: 7) 'ncbi-acc:AE014298.4?vdb-ctx=refseq' was downloaded successfully 2020-06-29T14:15:20 prefetch.2.10.7: 8) Downloading 'ncbi-acc:CM000457.1?vdb-ctx=refseq'... 2020-06-29T14:15:20 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T14:15:30 prefetch.2.10.7: HTTPS download succeed 2020-06-29T14:15:30 prefetch.2.10.7: 8) 'ncbi-acc:CM000457.1?vdb-ctx=refseq' was downloaded successfully 2020-06-29T14:15:30 prefetch.2.10.7: 9) Downloading 'ncbi-acc:CM000458.1?vdb-ctx=refseq'... 2020-06-29T14:15:30 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T14:15:43 prefetch.2.10.7: HTTPS download succeed 2020-06-29T14:15:43 prefetch.2.10.7: 9) 'ncbi-acc:CM000458.1?vdb-ctx=refseq' was downloaded successfully 2020-06-29T14:15:43 prefetch.2.10.7: 10) Downloading 'ncbi-acc:CM000459.1?vdb-ctx=refseq'... 2020-06-29T14:15:43 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T14:15:57 prefetch.2.10.7: HTTPS download succeed 2020-06-29T14:15:57 prefetch.2.10.7: 10) 'ncbi-acc:CM000459.1?vdb-ctx=refseq' was downloaded successfully 2020-06-29T14:15:57 prefetch.2.10.7: 11) Downloading 'ncbi-acc:FA000001.1?vdb-ctx=refseq'... 2020-06-29T14:15:57 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T14:16:10 prefetch.2.10.7: HTTPS download succeed 2020-06-29T14:16:10 prefetch.2.10.7: 11) 'ncbi-acc:FA000001.1?vdb-ctx=refseq' was downloaded successfully Read 14186871 spots for SRR1174369/SRR1174369.sra Written 14186871 spots for SRR1174369/SRR1174369.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: 00:04:38 14186871 reads; of these: 14186871 (100.00%) were unpaired; of these: 200092 (1.41%) aligned 0 times 9949802 (70.13%) aligned exactly 1 time 4036977 (28.46%) aligned >1 times 98.59% overall alignment rate Time searching: 00:04:38 Overall time: 00:04:38 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] 273838 / 13986779 = 0.0196 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 23:28:23: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX474522/SRX474522.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX474522/SRX474522.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX474522/SRX474522.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX474522/SRX474522.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 23:28:23: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:28:23: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:28:30: 1000000 INFO @ Mon, 29 Jun 2020 23:28:37: 2000000 INFO @ Mon, 29 Jun 2020 23:28:44: 3000000 INFO @ Mon, 29 Jun 2020 23:28:50: 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 23:28:53: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX474522/SRX474522.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX474522/SRX474522.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX474522/SRX474522.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX474522/SRX474522.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 23:28:53: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:28:53: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:28:57: 5000000 INFO @ Mon, 29 Jun 2020 23:29:01: 1000000 INFO @ Mon, 29 Jun 2020 23:29:05: 6000000 INFO @ Mon, 29 Jun 2020 23:29:08: 2000000 INFO @ Mon, 29 Jun 2020 23:29:12: 7000000 INFO @ Mon, 29 Jun 2020 23:29:15: 3000000 INFO @ Mon, 29 Jun 2020 23:29:19: 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 @ Mon, 29 Jun 2020 23:29:22: 4000000 INFO @ Mon, 29 Jun 2020 23:29:24: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX474522/SRX474522.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX474522/SRX474522.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX474522/SRX474522.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX474522/SRX474522.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 23:29:24: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:29:24: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:29:27: 9000000 INFO @ Mon, 29 Jun 2020 23:29:30: 5000000 INFO @ Mon, 29 Jun 2020 23:29:31: 1000000 INFO @ Mon, 29 Jun 2020 23:29:34: 10000000 INFO @ Mon, 29 Jun 2020 23:29:37: 6000000 INFO @ Mon, 29 Jun 2020 23:29:39: 2000000 INFO @ Mon, 29 Jun 2020 23:29:42: 11000000 INFO @ Mon, 29 Jun 2020 23:29:45: 7000000 INFO @ Mon, 29 Jun 2020 23:29:46: 3000000 INFO @ Mon, 29 Jun 2020 23:29:49: 12000000 INFO @ Mon, 29 Jun 2020 23:29:52: 8000000 INFO @ Mon, 29 Jun 2020 23:29:53: 4000000 INFO @ Mon, 29 Jun 2020 23:29:57: 13000000 INFO @ Mon, 29 Jun 2020 23:30:00: 9000000 INFO @ Mon, 29 Jun 2020 23:30:01: 5000000 INFO @ Mon, 29 Jun 2020 23:30:02: #1 tag size is determined as 51 bps INFO @ Mon, 29 Jun 2020 23:30:02: #1 tag size = 51 INFO @ Mon, 29 Jun 2020 23:30:02: #1 total tags in treatment: 13712941 INFO @ Mon, 29 Jun 2020 23:30:02: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:30:02: #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 23:30:02: #1 tags after filtering in treatment: 13712941 INFO @ Mon, 29 Jun 2020 23:30:02: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:30:02: #1 finished! INFO @ Mon, 29 Jun 2020 23:30:02: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:30:02: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:30:03: #2 number of paired peaks: 70 WARNING @ Mon, 29 Jun 2020 23:30:03: Too few paired peaks (70) 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 23:30:03: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX474522/SRX474522.05_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX474522/SRX474522.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX474522/SRX474522.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX474522/SRX474522.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:30:07: 10000000 INFO @ Mon, 29 Jun 2020 23:30:08: 6000000 INFO @ Mon, 29 Jun 2020 23:30:14: 11000000 INFO @ Mon, 29 Jun 2020 23:30:15: 7000000 INFO @ Mon, 29 Jun 2020 23:30:22: 12000000 INFO @ Mon, 29 Jun 2020 23:30:23: 8000000 INFO @ Mon, 29 Jun 2020 23:30:29: 13000000 INFO @ Mon, 29 Jun 2020 23:30:30: 9000000 INFO @ Mon, 29 Jun 2020 23:30:34: #1 tag size is determined as 51 bps INFO @ Mon, 29 Jun 2020 23:30:34: #1 tag size = 51 INFO @ Mon, 29 Jun 2020 23:30:34: #1 total tags in treatment: 13712941 INFO @ Mon, 29 Jun 2020 23:30:34: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:30:34: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 23:30:34: #1 tags after filtering in treatment: 13712941 INFO @ Mon, 29 Jun 2020 23:30:34: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:30:34: #1 finished! INFO @ Mon, 29 Jun 2020 23:30:34: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:30:34: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:30:35: #2 number of paired peaks: 70 WARNING @ Mon, 29 Jun 2020 23:30:35: Too few paired peaks (70) 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 23:30:35: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX474522/SRX474522.10_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/SRX474522/SRX474522.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX474522/SRX474522.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX474522/SRX474522.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:30:37: 10000000 INFO @ Mon, 29 Jun 2020 23:30:44: 11000000 INFO @ Mon, 29 Jun 2020 23:30:51: 12000000 INFO @ Mon, 29 Jun 2020 23:30:57: 13000000 INFO @ Mon, 29 Jun 2020 23:31:02: #1 tag size is determined as 51 bps INFO @ Mon, 29 Jun 2020 23:31:02: #1 tag size = 51 INFO @ Mon, 29 Jun 2020 23:31:02: #1 total tags in treatment: 13712941 INFO @ Mon, 29 Jun 2020 23:31:02: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:31:02: #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 23:31:02: #1 tags after filtering in treatment: 13712941 INFO @ Mon, 29 Jun 2020 23:31:02: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:31:02: #1 finished! INFO @ Mon, 29 Jun 2020 23:31:02: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:31:02: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:31:03: #2 number of paired peaks: 70 WARNING @ Mon, 29 Jun 2020 23:31:03: Too few paired peaks (70) 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 23:31:03: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX474522/SRX474522.20_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/SRX474522/SRX474522.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX474522/SRX474522.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX474522/SRX474522.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。