2021-06-10 04:22:39 [INFO] Starting.
2021-06-10 04:22:39 [INFO] Processing /grid/gillis/data/nfox/hi_c_data_processing/data_human/SRP244334/
2021-06-10 04:22:39 [INFO] Creating new aggregate : /grid/gillis/data/nfox/hi_c_data_processing/data_human/SRP244334/aggregate.hdf5
2021-06-10 04:22:39 [INFO] Using chromosome sizes at /grid/gillis/data/nfox/genomes/homo_sapiens_38/hg38.chrom.sizes
2021-06-10 04:22:39 [INFO] Using only main chromosomes: chr1, chr2, chr3, chr4, chr5, chr6, chr7, chrX, chr8, chr9, chr11, chr10, chr12, chr13, chr14, chr15, chr16, chr17, chr18, chr20, chr19, chrY, chr22, chr21, chrM
2021-06-10 04:22:40 [INFO] Building aggregate.
2021-06-10 04:22:40 [INFO] Writing every 10 Runs.
2021-06-10 04:22:40 [INFO] Processing SRX7623196. (1/2)
2021-06-10 04:22:40 [INFO] Processing SRX7623196-SRR10957040. (1/2)
2021-06-10 04:22:52 [INFO] Processing SRX7623195. (2/2)
2021-06-10 04:22:52 [INFO] Processing SRX7623195-SRR10957039. (2/2)
2021-06-10 04:23:12 [INFO] Writing to disk...
2021-06-10 04:23:16 [INFO] Finished.
2021-08-02 17:08:55 [INFO] Starting.
2021-08-02 17:08:56 [INFO] Processing /grid/gillis/data/nfox/hi_c_data_processing/data_human/SRP244334/
2021-08-02 17:08:56 [INFO] Appending to existing aggregate : /grid/gillis/data/nfox/hi_c_data_processing/data_human/SRP244334/aggregate.hdf5
2021-08-02 17:08:56 [WARNING] chroms=/grid/gillis/data/nfox/genomes/homo_sapiens_38/hg38.chrom.sizes is ignored due to existing aggregate.
2021-08-02 17:08:56 [INFO] Building aggregate for 1bp_raw network.
2021-08-02 17:08:56 [INFO] Writing every 10 Runs.
2021-08-02 17:08:56 [INFO] Processing SRX7623196. (1/2)
2021-08-02 17:08:56 [INFO] Processing SRX7623196-SRR10957040. (1/2)
2021-08-02 17:13:48 [INFO] Processing SRX7623195. (2/2)
2021-08-02 17:13:48 [INFO] Processing SRX7623195-SRR10957039. (2/2)
2021-08-02 17:23:00 [ERROR] Adding SRR10957039:chr14_vs_chr7 to in memory aggregate failed. Error message:
Traceback (most recent call last):
  File "/grid/gillis/data/nfox/hi_c_data_processing/software/aggregate.py", line 428, in add_dataset
    aggregate_data[c] = aggregate_data[c] + net
  File "/grid/gillis/home/nfox/software/miniconda3/lib/python3.8/site-packages/scipy/sparse/base.py", line 415, in __add__
    return self._add_sparse(other)
  File "/grid/gillis/home/nfox/software/miniconda3/lib/python3.8/site-packages/scipy/sparse/compressed.py", line 359, in _add_sparse
    return self._binopt(other, '_plus_')
  File "/grid/gillis/home/nfox/software/miniconda3/lib/python3.8/site-packages/scipy/sparse/compressed.py", line 1226, in _binopt
    indptr = np.empty(self.indptr.shape, dtype=idx_dtype)
MemoryError: Unable to allocate 408. MiB for an array with shape (107043719,) and data type int32

2021-08-04 22:12:55 [INFO] Starting.
2021-08-04 22:12:55 [INFO] Processing /grid/gillis/data/nfox/hi_c_data_processing/data_human/SRP244334/
2021-08-04 22:12:55 [INFO] Appending to existing aggregate : /grid/gillis/data/nfox/hi_c_data_processing/data_human/SRP244334/aggregate.hdf5
2021-08-04 22:12:55 [WARNING] chroms=/grid/gillis/data/nfox/genomes/homo_sapiens_38/hg38.chrom.sizes is ignored due to existing aggregate.
2021-08-04 22:12:56 [INFO] Building aggregate for 1bp_raw network.
2021-08-04 22:12:56 [INFO] Writing every 10 Runs.
2021-08-04 22:12:56 [INFO] Processing SRX7623196. (1/2)
2021-08-04 22:12:56 [INFO] Processing SRX7623196-SRR10957040. (1/2)
2021-08-04 22:16:27 [INFO] Processing SRX7623195. (2/2)
2021-08-04 22:16:27 [INFO] Processing SRX7623195-SRR10957039. (2/2)
2021-08-04 22:27:02 [INFO] Writing to disk...
2021-08-04 22:28:00 [INFO] Finished.
2021-08-12 14:34:18 [INFO] Starting.
2021-08-12 14:34:18 [INFO] Processing /grid/gillis/data/nfox/hi_c_data_processing/data_human/SRP244334/
2021-08-12 14:34:18 [INFO] Appending to existing aggregate : /grid/gillis/data/nfox/hi_c_data_processing/data_human/SRP244334/aggregate.hdf5
2021-08-12 14:34:18 [WARNING] chroms=/grid/gillis/data/nfox/genomes/homo_sapiens_38/hg38.chrom.sizes is ignored due to existing aggregate.
2021-08-12 14:34:19 [INFO] Building aggregate for 40kbp_raw network.
2021-08-12 14:34:19 [INFO] Writing every 10 Runs.
2021-08-12 14:34:19 [INFO] Processing SRX7623196. (1/2)
2021-08-12 14:34:19 [INFO] Processing SRX7623196-SRR10957040. (1/2)
2021-08-12 14:34:40 [INFO] Processing SRX7623195. (2/2)
2021-08-12 14:34:40 [INFO] Processing SRX7623195-SRR10957039. (2/2)
2021-08-12 14:35:07 [INFO] Writing to disk...
2021-08-12 14:35:10 [INFO] Finished.
2021-08-12 15:12:33 [INFO] Starting.
2021-08-12 15:12:33 [INFO] Processing /grid/gillis/data/nfox/hi_c_data_processing/data_human/SRP244334/
2021-08-12 15:12:33 [INFO] Appending to existing aggregate : /grid/gillis/data/nfox/hi_c_data_processing/data_human/SRP244334/aggregate.hdf5
2021-08-12 15:12:33 [WARNING] chroms=/grid/gillis/data/nfox/genomes/homo_sapiens_38/hg38.chrom.sizes is ignored due to existing aggregate.
2021-08-12 15:12:34 [INFO] Building aggregate for 25kbp_raw network.
2021-08-12 15:12:34 [INFO] Writing every 10 Runs.
2021-08-12 15:12:34 [INFO] Processing SRX7623196. (1/2)
2021-08-12 15:12:34 [INFO] Processing SRX7623196-SRR10957040. (1/2)
2021-08-12 15:12:55 [INFO] Processing SRX7623195. (2/2)
2021-08-12 15:12:55 [INFO] Processing SRX7623195-SRR10957039. (2/2)
2021-08-12 15:13:19 [INFO] Writing to disk...
2021-08-12 15:13:22 [INFO] Finished.
2021-08-12 15:47:44 [INFO] Starting.
2021-08-12 15:47:44 [INFO] Processing /grid/gillis/data/nfox/hi_c_data_processing/data_human/SRP244334/
2021-08-12 15:47:44 [INFO] Appending to existing aggregate : /grid/gillis/data/nfox/hi_c_data_processing/data_human/SRP244334/aggregate.hdf5
2021-08-12 15:47:44 [WARNING] chroms=/grid/gillis/data/nfox/genomes/homo_sapiens_38/hg38.chrom.sizes is ignored due to existing aggregate.
2021-08-12 15:47:45 [INFO] Building aggregate for 5kbp_raw network.
2021-08-12 15:47:45 [INFO] Writing every 10 Runs.
2021-08-12 15:47:45 [INFO] Processing SRX7623196. (1/2)
2021-08-12 15:47:45 [INFO] Processing SRX7623196-SRR10957040. (1/2)
2021-08-12 15:48:06 [INFO] Processing SRX7623195. (2/2)
2021-08-12 15:48:06 [INFO] Processing SRX7623195-SRR10957039. (2/2)
2021-08-12 15:48:36 [INFO] Writing to disk...
2021-08-12 15:48:41 [INFO] Finished.
2021-08-12 16:36:27 [INFO] Starting.
2021-08-12 16:36:27 [INFO] Processing /grid/gillis/data/nfox/hi_c_data_processing/data_human/SRP244334/
2021-08-12 16:36:27 [INFO] Appending to existing aggregate : /grid/gillis/data/nfox/hi_c_data_processing/data_human/SRP244334/aggregate.hdf5
2021-08-12 16:36:27 [WARNING] chroms=/grid/gillis/data/nfox/genomes/homo_sapiens_38/hg38.chrom.sizes is ignored due to existing aggregate.
2021-08-12 16:36:28 [INFO] Building aggregate for 1kbp_raw network.
2021-08-12 16:36:28 [INFO] Writing every 10 Runs.
2021-08-12 16:36:28 [INFO] Processing SRX7623196. (1/2)
2021-08-12 16:36:28 [INFO] Processing SRX7623196-SRR10957040. (1/2)
2021-08-12 16:36:54 [INFO] Processing SRX7623195. (2/2)
2021-08-12 16:36:54 [INFO] Processing SRX7623195-SRR10957039. (2/2)
2021-08-12 16:37:30 [INFO] Writing to disk...
2021-08-12 16:37:37 [INFO] Finished.
2021-08-20 18:04:36 [INFO] Starting.
2021-08-20 18:04:36 [INFO] Processing /grid/gillis/data/nfox/hi_c_data_processing/data_human/SRP244334/
2021-08-20 18:04:36 [INFO] Appending to existing aggregate : /grid/gillis/data/nfox/hi_c_data_processing/data_human/SRP244334/aggregate.hdf5
2021-08-20 18:04:36 [WARNING] chroms=/grid/gillis/data/nfox/genomes/homo_sapiens_38/hg38.chrom.sizes is ignored due to existing aggregate.
2021-08-20 18:04:37 [INFO] Building aggregate for 100kbp_raw network.
2021-08-20 18:04:37 [INFO] Writing every 10 Runs.
2021-08-20 18:04:37 [INFO] Processing SRX7623196. (1/2)
2021-08-20 18:04:37 [INFO] Processing SRX7623196-SRR10957040. (1/2)
2021-08-20 18:04:55 [INFO] Processing SRX7623195. (2/2)
2021-08-20 18:04:55 [INFO] Processing SRX7623195-SRR10957039. (2/2)
2021-08-20 18:05:31 [INFO] Writing to disk...
2021-08-20 18:05:34 [INFO] Finished.
2021-08-23 11:31:22 [INFO] Starting.
2021-08-23 11:31:22 [INFO] Processing /grid/gillis/data/nfox/hi_c_data_processing/data_human/SRP244334/
2021-08-23 11:31:22 [INFO] Appending to existing aggregate : /grid/gillis/data/nfox/hi_c_data_processing/data_human/SRP244334/aggregate.hdf5
2021-08-23 11:31:22 [WARNING] chroms=/grid/gillis/data/nfox/genomes/homo_sapiens_38/hg38.chrom.sizes is ignored due to existing aggregate.
2021-08-23 11:31:23 [INFO] Building aggregate for 250kbp_raw network.
2021-08-23 11:31:23 [INFO] Writing every 10 Runs.
2021-08-23 11:31:23 [INFO] Processing SRX7623196. (1/2)
2021-08-23 11:31:23 [INFO] Processing SRX7623196-SRR10957040. (1/2)
2021-08-23 11:31:32 [INFO] Processing SRX7623195. (2/2)
2021-08-23 11:31:32 [INFO] Processing SRX7623195-SRR10957039. (2/2)
2021-08-23 11:31:43 [INFO] Writing to disk...
2021-08-23 11:31:45 [INFO] Finished.
2021-08-23 13:17:26 [INFO] Starting.
2021-08-23 13:17:26 [INFO] Processing /grid/gillis/data/nfox/hi_c_data_processing/data_human/SRP244334/
2021-08-23 13:17:26 [INFO] Appending to existing aggregate : /grid/gillis/data/nfox/hi_c_data_processing/data_human/SRP244334/aggregate.hdf5
2021-08-23 13:17:26 [WARNING] chroms=/grid/gillis/data/nfox/genomes/homo_sapiens_38/hg38.chrom.sizes is ignored due to existing aggregate.
2021-08-23 13:17:26 [INFO] Building aggregate for 500kbp_raw network.
2021-08-23 13:17:26 [INFO] Writing every 10 Runs.
2021-08-23 13:17:26 [INFO] Processing SRX7623196. (1/2)
2021-08-23 13:17:26 [INFO] Processing SRX7623196-SRR10957040. (1/2)
2021-08-23 13:17:33 [INFO] Processing SRX7623195. (2/2)
2021-08-23 13:17:33 [INFO] Processing SRX7623195-SRR10957039. (2/2)
2021-08-23 13:17:39 [INFO] Writing to disk...
2021-08-23 13:17:40 [INFO] Finished.