Job ID = 8069581 SRX = SRX7917389 Genome = dm3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-08-08T03:34:59 prefetch.2.10.7: 1) Downloading 'SRR11312936'... 2020-08-08T03:34:59 prefetch.2.10.7: Downloading via HTTPS... 2020-08-08T03:35:43 prefetch.2.10.7: HTTPS download succeed 2020-08-08T03:35:43 prefetch.2.10.7: 'SRR11312936' is valid 2020-08-08T03:35:43 prefetch.2.10.7: 1) 'SRR11312936' was downloaded successfully Read 2336611 spots for SRR11312936/SRR11312936.sra Written 2336611 spots for SRR11312936/SRR11312936.sra fastq に変換しました。 bowtie でマッピング中... Your job 8069952 ("srTdm6") has been submitted Time loading reference: 00:00:00 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:04:48 2336611 reads; of these: 2336611 (100.00%) were paired; of these: 537612 (23.01%) aligned concordantly 0 times 1341676 (57.42%) aligned concordantly exactly 1 time 457323 (19.57%) aligned concordantly >1 times ---- 537612 pairs aligned concordantly 0 times; of these: 249803 (46.47%) aligned discordantly 1 time ---- 287809 pairs aligned 0 times concordantly or discordantly; of these: 575618 mates make up the pairs; of these: 211930 (36.82%) aligned 0 times 144138 (25.04%) aligned exactly 1 time 219550 (38.14%) aligned >1 times 95.47% overall alignment rate Time searching: 00:04:48 Overall time: 00:04:48 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_rmdup_core] processing reference chr2L... [bam_rmdup_core] processing reference chr2LHet... [bam_rmdup_core] processing reference chr2R... [bam_rmdup_core] processing reference chr2RHet... [bam_rmdup_core] processing reference chr3L... [bam_rmdup_core] processing reference chr3LHet... [bam_rmdup_core] processing reference chr3R... [bam_rmdup_core] processing reference chr3RHet... [bam_rmdup_core] processing reference chr4... [bam_rmdup_core] processing reference chrM... [bam_rmdup_core] processing reference chrU... [bam_rmdup_core] processing reference chrUextra... [bam_rmdup_core] processing reference chrX... [bam_rmdup_core] processing reference chrXHet... [bam_rmdup_core] processing reference chrYHet... [bam_rmdup_core] 624782 / 2039589 = 0.3063 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 @ Sat, 08 Aug 2020 12:42:13: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7917389/SRX7917389.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7917389/SRX7917389.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7917389/SRX7917389.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7917389/SRX7917389.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 @ Sat, 08 Aug 2020 12:42:13: #1 read tag files... INFO @ Sat, 08 Aug 2020 12:42:13: #1 read treatment tags... INFO @ Sat, 08 Aug 2020 12:42:19: 1000000 INFO @ Sat, 08 Aug 2020 12:42:24: 2000000 INFO @ Sat, 08 Aug 2020 12:42:30: 3000000 INFO @ Sat, 08 Aug 2020 12:42:31: #1 tag size is determined as 62 bps INFO @ Sat, 08 Aug 2020 12:42:31: #1 tag size = 62 INFO @ Sat, 08 Aug 2020 12:42:31: #1 total tags in treatment: 1214269 INFO @ Sat, 08 Aug 2020 12:42:31: #1 user defined the maximum tags... INFO @ Sat, 08 Aug 2020 12:42:31: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 08 Aug 2020 12:42:31: #1 tags after filtering in treatment: 1003370 INFO @ Sat, 08 Aug 2020 12:42:31: #1 Redundant rate of treatment: 0.17 INFO @ Sat, 08 Aug 2020 12:42:31: #1 finished! INFO @ Sat, 08 Aug 2020 12:42:31: #2 Build Peak Model... INFO @ Sat, 08 Aug 2020 12:42:31: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 08 Aug 2020 12:42:31: #2 number of paired peaks: 19 WARNING @ Sat, 08 Aug 2020 12:42:31: Too few paired peaks (19) 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 @ Sat, 08 Aug 2020 12:42:31: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX7917389/SRX7917389.05_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/SRX7917389/SRX7917389.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX7917389/SRX7917389.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX7917389/SRX7917389.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling 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 @ Sat, 08 Aug 2020 12:42:43: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7917389/SRX7917389.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7917389/SRX7917389.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7917389/SRX7917389.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7917389/SRX7917389.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 @ Sat, 08 Aug 2020 12:42:43: #1 read tag files... INFO @ Sat, 08 Aug 2020 12:42:43: #1 read treatment tags... INFO @ Sat, 08 Aug 2020 12:42:49: 1000000 INFO @ Sat, 08 Aug 2020 12:42:55: 2000000 INFO @ Sat, 08 Aug 2020 12:43:00: 3000000 INFO @ Sat, 08 Aug 2020 12:43:01: #1 tag size is determined as 62 bps INFO @ Sat, 08 Aug 2020 12:43:01: #1 tag size = 62 INFO @ Sat, 08 Aug 2020 12:43:01: #1 total tags in treatment: 1214269 INFO @ Sat, 08 Aug 2020 12:43:01: #1 user defined the maximum tags... INFO @ Sat, 08 Aug 2020 12:43:01: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 08 Aug 2020 12:43:01: #1 tags after filtering in treatment: 1003370 INFO @ Sat, 08 Aug 2020 12:43:01: #1 Redundant rate of treatment: 0.17 INFO @ Sat, 08 Aug 2020 12:43:01: #1 finished! INFO @ Sat, 08 Aug 2020 12:43:01: #2 Build Peak Model... INFO @ Sat, 08 Aug 2020 12:43:01: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 08 Aug 2020 12:43:01: #2 number of paired peaks: 19 WARNING @ Sat, 08 Aug 2020 12:43:01: Too few paired peaks (19) 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 @ Sat, 08 Aug 2020 12:43:01: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX7917389/SRX7917389.10_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/SRX7917389/SRX7917389.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX7917389/SRX7917389.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX7917389/SRX7917389.10_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 @ Sat, 08 Aug 2020 12:43:13: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7917389/SRX7917389.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7917389/SRX7917389.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7917389/SRX7917389.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7917389/SRX7917389.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 @ Sat, 08 Aug 2020 12:43:13: #1 read tag files... INFO @ Sat, 08 Aug 2020 12:43:13: #1 read treatment tags... INFO @ Sat, 08 Aug 2020 12:43:19: 1000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 08 Aug 2020 12:43:26: 2000000 BigWig に変換しました。 INFO @ Sat, 08 Aug 2020 12:43:32: 3000000 INFO @ Sat, 08 Aug 2020 12:43:33: #1 tag size is determined as 62 bps INFO @ Sat, 08 Aug 2020 12:43:33: #1 tag size = 62 INFO @ Sat, 08 Aug 2020 12:43:33: #1 total tags in treatment: 1214269 INFO @ Sat, 08 Aug 2020 12:43:33: #1 user defined the maximum tags... INFO @ Sat, 08 Aug 2020 12:43:33: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 08 Aug 2020 12:43:33: #1 tags after filtering in treatment: 1003370 INFO @ Sat, 08 Aug 2020 12:43:33: #1 Redundant rate of treatment: 0.17 INFO @ Sat, 08 Aug 2020 12:43:33: #1 finished! INFO @ Sat, 08 Aug 2020 12:43:33: #2 Build Peak Model... INFO @ Sat, 08 Aug 2020 12:43:33: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 08 Aug 2020 12:43:33: #2 number of paired peaks: 19 WARNING @ Sat, 08 Aug 2020 12:43:33: Too few paired peaks (19) 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 @ Sat, 08 Aug 2020 12:43:33: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX7917389/SRX7917389.20_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/SRX7917389/SRX7917389.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX7917389/SRX7917389.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX7917389/SRX7917389.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling