diff --git a/.github/workflows/drishti-darshan-3.4.0.yml b/.github/workflows/drishti-darshan-3.4.0.yml index 6535241..b26f77a 100644 --- a/.github/workflows/drishti-darshan-3.4.0.yml +++ b/.github/workflows/drishti-darshan-3.4.0.yml @@ -59,37 +59,41 @@ jobs: run: | export PATH=/opt/darshan/bin:$PATH - drishti --issues sample/jlbez_8a_benchmark_write_parallel_id1321662_8-21-5892-15802854900629188750_106.darshan + drishti --issues sample/darshan/jlbez_8a_benchmark_write_parallel_id1321662_8-21-5892-15802854900629188750_106.darshan - name: Run Drishti (--code) run: | export PATH=/opt/darshan/bin:$PATH - drishti --code sample/jlbez_8a_benchmark_write_parallel_id1321662_8-21-5892-15802854900629188750_106.darshan + drishti --code sample/darshan/jlbez_8a_benchmark_write_parallel_id1321662_8-21-5892-15802854900629188750_106.darshan - name: Run DXT Explorer (--verbose) run: | export PATH=/opt/darshan/bin:$PATH - drishti --verbose sample/jlbez_8a_benchmark_write_parallel_id1321662_8-21-5892-15802854900629188750_106.darshan + drishti --verbose sample/darshan/jlbez_8a_benchmark_write_parallel_id1321662_8-21-5892-15802854900629188750_106.darshan - name: Run DXT Explorer (--path) run: | export PATH=/opt/darshan/bin:$PATH - drishti --path sample/jlbez_8a_benchmark_write_parallel_id1321662_8-21-5892-15802854900629188750_106.darshan + drishti --path sample/darshan/jlbez_8a_benchmark_write_parallel_id1321662_8-21-5892-15802854900629188750_106.darshan - name: Run DXT Explorer (--html) run: | export PATH=/opt/darshan/bin:$PATH - drishti --html sample/jlbez_8a_benchmark_write_parallel_id1321662_8-21-5892-15802854900629188750_106.darshan + drishti --html sample/darshan/jlbez_8a_benchmark_write_parallel_id1321662_8-21-5892-15802854900629188750_106.darshan - name: Run DXT Explorer (--svg) run: | export PATH=/opt/darshan/bin:$PATH - drishti --svg sample/jlbez_8a_benchmark_write_parallel_id1321662_8-21-5892-15802854900629188750_106.darshan + drishti --svg sample/darshan/jlbez_8a_benchmark_write_parallel_id1321662_8-21-5892-15802854900629188750_106.darshan + + - name: Run DXT Explorer (--verbose) recorder + run: | + drishti --verbose sample/recorder/lammps_lj_flow_2d_mpiio - name: Upload Artifact if: always() diff --git a/.github/workflows/drishti-darshan-3.4.1.yml b/.github/workflows/drishti-darshan-3.4.1.yml index 29ed011..778ce51 100644 --- a/.github/workflows/drishti-darshan-3.4.1.yml +++ b/.github/workflows/drishti-darshan-3.4.1.yml @@ -59,37 +59,41 @@ jobs: run: | export PATH=/opt/darshan/bin:$PATH - drishti --issues sample/jlbez_8a_benchmark_write_parallel_id1321662_8-21-5892-15802854900629188750_106.darshan + drishti --issues sample/darshan/jlbez_8a_benchmark_write_parallel_id1321662_8-21-5892-15802854900629188750_106.darshan - name: Run Drishti (--code) run: | export PATH=/opt/darshan/bin:$PATH - drishti --code sample/jlbez_8a_benchmark_write_parallel_id1321662_8-21-5892-15802854900629188750_106.darshan + drishti --code sample/darshan/jlbez_8a_benchmark_write_parallel_id1321662_8-21-5892-15802854900629188750_106.darshan - name: Run DXT Explorer (--verbose) run: | export PATH=/opt/darshan/bin:$PATH - drishti --verbose sample/jlbez_8a_benchmark_write_parallel_id1321662_8-21-5892-15802854900629188750_106.darshan + drishti --verbose sample/darshan/jlbez_8a_benchmark_write_parallel_id1321662_8-21-5892-15802854900629188750_106.darshan - name: Run DXT Explorer (--path) run: | export PATH=/opt/darshan/bin:$PATH - drishti --path sample/jlbez_8a_benchmark_write_parallel_id1321662_8-21-5892-15802854900629188750_106.darshan + drishti --path sample/darshan/jlbez_8a_benchmark_write_parallel_id1321662_8-21-5892-15802854900629188750_106.darshan - name: Run DXT Explorer (--html) run: | export PATH=/opt/darshan/bin:$PATH - drishti --html sample/jlbez_8a_benchmark_write_parallel_id1321662_8-21-5892-15802854900629188750_106.darshan + drishti --html sample/darshan/jlbez_8a_benchmark_write_parallel_id1321662_8-21-5892-15802854900629188750_106.darshan - name: Run DXT Explorer (--svg) run: | export PATH=/opt/darshan/bin:$PATH - drishti --svg sample/jlbez_8a_benchmark_write_parallel_id1321662_8-21-5892-15802854900629188750_106.darshan + drishti --svg sample/darshan/jlbez_8a_benchmark_write_parallel_id1321662_8-21-5892-15802854900629188750_106.darshan + + - name: Run DXT Explorer (--verbose) recorder + run: | + drishti --verbose sample/recorder/lammps_lj_flow_2d_mpiio - name: Upload Artifact if: always() diff --git a/.github/workflows/drishti-darshan-3.4.2.yml b/.github/workflows/drishti-darshan-3.4.2.yml index 0398f37..adf5ab4 100644 --- a/.github/workflows/drishti-darshan-3.4.2.yml +++ b/.github/workflows/drishti-darshan-3.4.2.yml @@ -59,37 +59,41 @@ jobs: run: | export PATH=/opt/darshan/bin:$PATH - drishti --issues sample/jlbez_8a_benchmark_write_parallel_id1321662_8-21-5892-15802854900629188750_106.darshan + drishti --issues sample/darshan/jlbez_8a_benchmark_write_parallel_id1321662_8-21-5892-15802854900629188750_106.darshan - name: Run Drishti (--code) run: | export PATH=/opt/darshan/bin:$PATH - drishti --code sample/jlbez_8a_benchmark_write_parallel_id1321662_8-21-5892-15802854900629188750_106.darshan + drishti --code sample/darshan/jlbez_8a_benchmark_write_parallel_id1321662_8-21-5892-15802854900629188750_106.darshan - name: Run DXT Explorer (--verbose) run: | export PATH=/opt/darshan/bin:$PATH - drishti --verbose sample/jlbez_8a_benchmark_write_parallel_id1321662_8-21-5892-15802854900629188750_106.darshan + drishti --verbose sample/darshan/jlbez_8a_benchmark_write_parallel_id1321662_8-21-5892-15802854900629188750_106.darshan - name: Run DXT Explorer (--path) run: | export PATH=/opt/darshan/bin:$PATH - drishti --path sample/jlbez_8a_benchmark_write_parallel_id1321662_8-21-5892-15802854900629188750_106.darshan + drishti --path sample/darshan/jlbez_8a_benchmark_write_parallel_id1321662_8-21-5892-15802854900629188750_106.darshan - name: Run DXT Explorer (--html) run: | export PATH=/opt/darshan/bin:$PATH - drishti --html sample/jlbez_8a_benchmark_write_parallel_id1321662_8-21-5892-15802854900629188750_106.darshan + drishti --html sample/darshan/jlbez_8a_benchmark_write_parallel_id1321662_8-21-5892-15802854900629188750_106.darshan - name: Run DXT Explorer (--svg) run: | export PATH=/opt/darshan/bin:$PATH - drishti --svg sample/jlbez_8a_benchmark_write_parallel_id1321662_8-21-5892-15802854900629188750_106.darshan + drishti --svg sample/darshan/jlbez_8a_benchmark_write_parallel_id1321662_8-21-5892-15802854900629188750_106.darshan + + - name: Run DXT Explorer (--verbose) recorder + run: | + drishti --verbose sample/recorder/lammps_lj_flow_2d_mpiio - name: Upload Artifact if: always() diff --git a/drishti/handlers/handle_darshan.py b/drishti/handlers/handle_darshan.py index 6c592ec..d47fbea 100644 --- a/drishti/handlers/handle_darshan.py +++ b/drishti/handlers/handle_darshan.py @@ -81,7 +81,10 @@ def handler(): information = darshanll.log_get_job(log) - log_version = information['metadata']['lib_ver'] + if 'log_ver' in information: + log_version = information['log_ver'] + else: + log_version = information['metadata']['lib_ver'] library_version = darshanll.get_lib_version() # Make sure log format is of the same version @@ -144,6 +147,100 @@ def handler(): df_mpiio = None total_size_mpiio = 0 + + dxt_posix = None + dxt_posix_read_data = None + dxt_posix_write_data = None + dxt_mpiio = None + + df_lustre = None + if "LUSTRE" in report.records: + df_lustre = report.records['LUSTRE'].to_df() + + if args.backtrace: + if "DXT_POSIX" in report.records: + dxt_posix = report.records["DXT_POSIX"].to_df() + dxt_posix = pd.DataFrame(dxt_posix) + if "address_line_mapping" not in dxt_posix: + args.backtrace = False + else: + read_id = [] + read_rank = [] + read_length = [] + read_offsets = [] + read_end_time = [] + read_start_time = [] + read_operation = [] + + write_id = [] + write_rank = [] + write_length = [] + write_offsets = [] + write_end_time = [] + write_start_time = [] + write_operation = [] + + for r in zip(dxt_posix['rank'], dxt_posix['read_segments'], dxt_posix['write_segments'], dxt_posix['id']): + if not r[1].empty: + read_id.append([r[3]] * len((r[1]['length'].to_list()))) + read_rank.append([r[0]] * len((r[1]['length'].to_list()))) + read_length.append(r[1]['length'].to_list()) + read_end_time.append(r[1]['end_time'].to_list()) + read_start_time.append(r[1]['start_time'].to_list()) + read_operation.append(['read'] * len((r[1]['length'].to_list()))) + read_offsets.append(r[1]['offset'].to_list()) + + if not r[2].empty: + write_id.append([r[3]] * len((r[2]['length'].to_list()))) + write_rank.append([r[0]] * len((r[2]['length'].to_list()))) + write_length.append(r[2]['length'].to_list()) + write_end_time.append(r[2]['end_time'].to_list()) + write_start_time.append(r[2]['start_time'].to_list()) + write_operation.append(['write'] * len((r[2]['length'].to_list()))) + write_offsets.append(r[2]['offset'].to_list()) + + read_id = [element for nestedlist in read_id for element in nestedlist] + read_rank = [element for nestedlist in read_rank for element in nestedlist] + read_length = [element for nestedlist in read_length for element in nestedlist] + read_offsets = [element for nestedlist in read_offsets for element in nestedlist] + read_end_time = [element for nestedlist in read_end_time for element in nestedlist] + read_operation = [element for nestedlist in read_operation for element in nestedlist] + read_start_time = [element for nestedlist in read_start_time for element in nestedlist] + + write_id = [element for nestedlist in write_id for element in nestedlist] + write_rank = [element for nestedlist in write_rank for element in nestedlist] + write_length = [element for nestedlist in write_length for element in nestedlist] + write_offsets = [element for nestedlist in write_offsets for element in nestedlist] + write_end_time = [element for nestedlist in write_end_time for element in nestedlist] + write_operation = [element for nestedlist in write_operation for element in nestedlist] + write_start_time = [element for nestedlist in write_start_time for element in nestedlist] + + dxt_posix_read_data = pd.DataFrame( + { + 'id': read_id, + 'rank': read_rank, + 'length': read_length, + 'end_time': read_end_time, + 'start_time': read_start_time, + 'operation': read_operation, + 'offsets': read_offsets, + }) + + dxt_posix_write_data = pd.DataFrame( + { + 'id': write_id, + 'rank': write_rank, + 'length': write_length, + 'end_time': write_end_time, + 'start_time': write_start_time, + 'operation': write_operation, + 'offsets': write_offsets, + }) + + if "DXT_MPIIO" in report.records: + dxt_mpiio = report.records["DXT_MPIIO"].to_df() + dxt_mpiio = pd.DataFrame(dxt_mpiio) + # Since POSIX will capture both POSIX-only accesses and those comming from MPI-IO, we can subtract those if total_size_posix > 0 and total_size_posix >= total_size_mpiio: @@ -262,7 +359,7 @@ def handler(): detected_files.columns = ['id', 'total_reads', 'total_writes'] detected_files.loc[:, 'id'] = detected_files.loc[:, 'id'].astype(str) - check_small_operation(total_reads, total_reads_small, total_writes, total_writes_small, detected_files, modules, file_map, df_posix) + check_small_operation(total_reads, total_reads_small, total_writes, total_writes_small, detected_files, modules, file_map, dxt_posix, dxt_posix_read_data, dxt_posix_write_data) ######################################################################################################################################################################### @@ -271,7 +368,7 @@ def handler(): total_mem_not_aligned = df['counters']['POSIX_MEM_NOT_ALIGNED'].sum() total_file_not_aligned = df['counters']['POSIX_FILE_NOT_ALIGNED'].sum() - check_misaligned(total_operations, total_mem_not_aligned, total_file_not_aligned, modules) + check_misaligned(total_operations, total_mem_not_aligned, total_file_not_aligned, modules, file_map, df_lustre, dxt_posix, dxt_posix_read_data) ######################################################################################################################################################################### @@ -280,7 +377,7 @@ def handler(): max_read_offset = df['counters']['POSIX_MAX_BYTE_READ'].max() max_write_offset = df['counters']['POSIX_MAX_BYTE_WRITTEN'].max() - check_traffic(max_read_offset, total_read_size, max_write_offset, total_written_size) + check_traffic(max_read_offset, total_read_size, max_write_offset, total_written_size, dxt_posix, dxt_posix_read_data, dxt_posix_write_data) ######################################################################################################################################################################### @@ -305,7 +402,7 @@ def handler(): write_random = total_writes - write_consecutive - write_sequential #print('WRITE Random: {} ({:.2f}%)'.format(write_random, write_random / total_writes * 100)) - check_random_operation(read_consecutive, read_sequential, read_random, total_reads, write_consecutive, write_sequential, write_random, total_writes) + check_random_operation(read_consecutive, read_sequential, read_random, total_reads, write_consecutive, write_sequential, write_random, total_writes, dxt_posix, dxt_posix_read_data, dxt_posix_write_data) ######################################################################################################################################################################### @@ -385,7 +482,7 @@ def handler(): column_names = ['id', 'data_imbalance'] detected_files = pd.DataFrame(detected_files, columns=column_names) - check_shared_data_imblance(stragglers_count, detected_files, file_map) + check_shared_data_imblance(stragglers_count, detected_files, file_map, dxt_posix, dxt_posix_read_data, dxt_posix_write_data) # POSIX_F_FASTEST_RANK_TIME # POSIX_F_SLOWEST_RANK_TIME @@ -442,7 +539,7 @@ def handler(): column_names = ['id', 'write_imbalance'] detected_files = pd.DataFrame(detected_files, columns=column_names) - check_individual_write_imbalance(imbalance_count, detected_files, file_map) + check_individual_write_imbalance(imbalance_count, detected_files, file_map, dxt_posix, dxt_posix_write_data) imbalance_count = 0 @@ -458,7 +555,7 @@ def handler(): column_names = ['id', 'read_imbalance'] detected_files = pd.DataFrame(detected_files, columns=column_names) - check_individual_read_imbalance(imbalance_count, detected_files, file_map) + check_individual_read_imbalance(imbalance_count, detected_files, file_map, dxt_posix, dxt_posix_read_data) ######################################################################################################################################################################### @@ -493,7 +590,7 @@ def handler(): column_names = ['id', 'absolute_indep_reads', 'percent_indep_reads'] detected_files = pd.DataFrame(detected_files, columns=column_names) - check_mpi_collective_read_operation(mpiio_coll_reads, mpiio_indep_reads, total_mpiio_read_operations, detected_files, file_map) + check_mpi_collective_read_operation(mpiio_coll_reads, mpiio_indep_reads, total_mpiio_read_operations, detected_files, file_map, dxt_mpiio) df_mpiio_collective_writes = df_mpiio['counters'] #.loc[(df_mpiio['counters']['MPIIO_COLL_WRITES'] > 0)] @@ -518,7 +615,7 @@ def handler(): column_names = ['id', 'absolute_indep_writes', 'percent_indep_writes'] detected_files = pd.DataFrame(detected_files, columns=column_names) - check_mpi_collective_write_operation(mpiio_coll_writes, mpiio_indep_writes, total_mpiio_write_operations, detected_files, file_map) + check_mpi_collective_write_operation(mpiio_coll_writes, mpiio_indep_writes, total_mpiio_write_operations, detected_files, file_map, dxt_mpiio) ######################################################################################################################################################################### diff --git a/drishti/handlers/handle_tau.py b/drishti/handlers/handle_tau.py new file mode 100644 index 0000000..744d813 --- /dev/null +++ b/drishti/handlers/handle_tau.py @@ -0,0 +1,440 @@ +#!/usr/bin/env python3 + +import time +import pandas as pd + +from rich import print +from drishti.includes.module import * +from drishti.includes.supports.otf2csv import otf2_to_csv + + +def handler(): + console = init_console() + insights_start_time = time.time() + + if os.path.exists(args.log_path + '.intervals.csv') and os.path.exists(args.log_path + '.filemap.csv'): + print('Using parsed file: {}'.format(os.path.abspath(args.log_path + '.intervals.csv'))) + print('Using parsed file: {}'.format(os.path.abspath(args.log_path + '.filemap.csv'))) + df_intervals = pd.read_csv(args.log_path + '.intervals.csv') + df_file_map = pd.read_csv(args.log_path + '.filemap.csv') + file_map = {} + for index, row in df_file_map.iterrows(): + file_map[row['file_id']] = row['file_name'] + else: + otf2_to_csv(args.log_path + '/traces.otf2', args.log_path + '.intervals.csv') + df_intervals = pd.read_csv(args.log_path + '.intervals.csv') + file_map = df_intervals.groupby('file_id')['file_name'].first().to_dict() + + def add_api(row): + if 'MPI' in row['function']: + return 'MPI-IO' + elif 'H5' in row['function']: + return 'H5F' + else: + return 'POSIX' + + def add_duration(row): + return row['end'] - row['start'] + + df_intervals['api'] = df_intervals.apply(add_api, axis=1) + df_intervals['duration'] = df_intervals.apply(add_duration, axis=1) + + df_intervals.to_csv(args.log_path + '.intervals.csv', mode='w', index=False, header=True) + + df_file_map = pd.DataFrame(list(file_map.items()), columns=['file_id', 'file_name']) + df_file_map.to_csv(args.log_path + '.filemap.csv', mode='w', index=False, header=True) + + + modules = set(df_intervals['api'].unique()) + # Check usage of POSIX, and MPI-IO per file + total_size_stdio = 0 + total_size_posix = 0 + total_size_mpiio = 0 + total_size = 0 + + total_files = len(file_map) + total_files_stdio = 0 + total_files_posix = 0 + total_files_mpiio = 0 + + for id in file_map.keys(): + df_intervals_in_one_file = df_intervals[(df_intervals['file_id'] == id)] + df_stdio_intervals_in_one_file = df_intervals_in_one_file[(df_intervals_in_one_file['api'] == 'STDIO')] + df_posix_intervals_in_one_file = df_intervals_in_one_file[(df_intervals_in_one_file['api'] == 'POSIX')] + df_mpiio_intervals_in_one_file = df_intervals_in_one_file[(df_intervals_in_one_file['api'] == 'MPI-IO')] + + if len(df_stdio_intervals_in_one_file): + total_files_stdio += 1 + total_size_stdio += df_stdio_intervals_in_one_file['size'].sum() + + if len(df_posix_intervals_in_one_file): + total_files_posix += 1 + total_size_posix += df_posix_intervals_in_one_file['size'].sum() + + if len(df_mpiio_intervals_in_one_file): + total_files_mpiio += 1 + total_size_mpiio += df_mpiio_intervals_in_one_file['size'].sum() + + + # Since POSIX will capture both POSIX-only accesses and those comming from MPI-IO, we can subtract those + if total_size_posix > 0 and total_size_posix >= total_size_mpiio: + total_size_posix -= total_size_mpiio + + total_size = total_size_stdio + total_size_posix + total_size_mpiio + + assert(total_size_stdio >= 0) + assert(total_size_posix >= 0) + assert(total_size_mpiio >= 0) + + check_stdio(total_size, total_size_stdio) + check_mpiio(modules) + + ######################################################################################################################################################################### + + if df_intervals['api'].eq('POSIX').any(): + df_posix = df_intervals[(df_intervals['api'] == 'POSIX')] + + ######################################################################################################################################################################### + + # Get number of write/read operations + total_reads = len(df_posix[(df_posix['function'].str.contains('read'))]) + total_writes = len(df_posix[~(df_posix['function'].str.contains('read'))]) + + # Get total number of I/O operations + total_operations = total_writes + total_reads + + # To check whether the application is write-intersive or read-intensive we only look at the POSIX level and check if the difference between reads and writes is larger than 10% (for more or less), otherwise we assume a balance + check_operation_intensive(total_operations, total_reads, total_writes) + + total_read_size = df_posix[(df_posix['function'].str.contains('read'))]['size'].sum() + total_written_size = df_posix[~(df_posix['function'].str.contains('read'))]['size'].sum() + + total_size = total_written_size + total_read_size + + check_size_intensive(total_size, total_read_size, total_written_size) + + ######################################################################################################################################################################### + + # Get the number of small I/O operations (less than 1 MB) + + total_reads_small = len(df_posix[(df_posix['function'].str.contains('read')) & (df_posix['size'] < thresholds['small_bytes'][0])]) + total_writes_small = len(df_posix[~(df_posix['function'].str.contains('read')) & (df_posix['size'] < thresholds['small_bytes'][0])]) + + detected_files = [] + for id in file_map.keys(): + read_cnt = len(df_posix[(df_posix['file_id'] == id) & (df_posix['function'].str.contains('read')) & (df_posix['size'] < thresholds['small_bytes'][0])]) + write_cnt = len(df_posix[(df_posix['file_id'] == id) & ~(df_posix['function'].str.contains('read')) & (df_posix['size'] < thresholds['small_bytes'][0])]) + detected_files.append([id, read_cnt, write_cnt]) + + column_names = ['id', 'total_reads', 'total_writes'] + detected_files = pd.DataFrame(detected_files, columns=column_names) + + check_small_operation(total_reads, total_reads_small, total_writes, total_writes_small, detected_files, modules, file_map) + + ######################################################################################################################################################################### + + # Redundant read-traffic (based on Phill) + # POSIX_MAX_BYTE_READ (Highest offset in the file that was read) + df_posix_with_offset = df_posix[df_posix['offset'] != 'Unknown'] + df_posix_with_offset = df_posix_with_offset.astype({'offset': int}) + + max_read_offset = df_posix_with_offset[(df_posix_with_offset['function'].str.contains('read'))]['offset'].max() + max_write_offset = df_posix_with_offset[~(df_posix_with_offset['function'].str.contains('read'))]['offset'].max() + + check_traffic(max_read_offset, total_read_size, max_write_offset, total_written_size) + + ######################################################################################################################################################################### + + # Check for a lot of random operations + + grp_posix_by_id = df_posix_with_offset.groupby('file_id') + + read_consecutive = 0 + read_sequential = 0 + read_random = 0 + + for id, df_filtered in grp_posix_by_id: + df_filtered = df_filtered[(df_filtered['function'].str.contains('read'))].sort_values('start') + + for i in range(len(df_filtered) - 1): + curr_interval = df_filtered.iloc[i] + next_interval = df_filtered.iloc[i + 1] + if curr_interval['offset'] + curr_interval['size'] == next_interval['offset']: + read_consecutive += 1 + elif curr_interval['offset'] + curr_interval['size'] < next_interval['offset']: + read_sequential += 1 + else: + read_random += 1 + + write_consecutive = 0 + write_sequential = 0 + write_random = 0 + + for id, df_filtered in grp_posix_by_id: + df_filtered = df_filtered[~(df_filtered['function'].str.contains('read'))].sort_values('start') + + for i in range(len(df_filtered) - 1): + curr_interval = df_filtered.iloc[i] + next_interval = df_filtered.iloc[i + 1] + if curr_interval['offset'] + curr_interval['size'] == next_interval['offset']: + write_consecutive += 1 + elif curr_interval['offset'] + curr_interval['size'] < next_interval['offset']: + write_sequential += 1 + else: + write_random += 1 + + check_random_operation(read_consecutive, read_sequential, read_random, total_reads, write_consecutive, write_sequential, write_random, total_writes) + + ######################################################################################################################################################################### + + # Shared file with small operations + + # A file is shared if it's been read/written by more than 1 rank + detected_files = df_posix.groupby('file_id')['rank'].nunique() + shared_files = set(detected_files[detected_files > 1].index) + + total_shared_reads = len(df_posix[(df_posix['file_id'].isin(shared_files)) & (df_posix['function'].str.contains('read'))]) + total_shared_reads_small = len(df_posix[(df_posix['file_id'].isin(shared_files)) + & (df_posix['function'].str.contains('read')) + & (df_posix['size'] < thresholds['small_bytes'][0])]) + + total_shared_writes = len(df_posix[(df_posix['file_id'].isin(shared_files)) & ~(df_posix['function'].str.contains('read'))]) + total_shared_writes_small = len(df_posix[(df_posix['file_id'].isin(shared_files)) + & ~(df_posix['function'].str.contains('read')) + & (df_posix['size'] < thresholds['small_bytes'][0])]) + + detected_files = [] + for id in shared_files: + read_cnt = len(df_posix[(df_posix['file_id'] == id) + & (df_posix['function'].str.contains('read')) + & (df_posix['size'] < thresholds['small_bytes'][0])]) + write_cnt = len(df_posix[(df_posix['file_id'] == id) + & ~(df_posix['function'].str.contains('read')) + & (df_posix['size'] < thresholds['small_bytes'][0])]) + detected_files.append([id, read_cnt, write_cnt]) + + column_names = ['id', 'INSIGHTS_POSIX_SMALL_READS', 'INSIGHTS_POSIX_SMALL_WRITES'] + detected_files = pd.DataFrame(detected_files, columns=column_names) + + check_shared_small_operation(total_shared_reads, total_shared_reads_small, total_shared_writes, total_shared_writes_small, detected_files, file_map) + + ######################################################################################################################################################################### + + stragglers_count = 0 + + detected_files = [] + for id in shared_files: + df_posix_in_one_file = df_posix[(df_posix['file_id'] == id)] + total_transfer_size = df_posix_in_one_file['size'].sum() + + df_detected = df_posix_in_one_file.groupby('rank').agg({'size': 'sum', 'duration': 'sum'}).reset_index() + slowest_rank_bytes = df_detected.loc[df_detected['duration'].idxmax(), 'size'] + fastest_rank_bytes = df_detected.loc[df_detected['duration'].idxmin(), 'size'] + + if total_transfer_size and abs(slowest_rank_bytes - fastest_rank_bytes) / total_transfer_size > thresholds['imbalance_stragglers'][0]: + stragglers_count += 1 + + detected_files.append([ + id, abs(slowest_rank_bytes - fastest_rank_bytes) / total_transfer_size * 100 + ]) + + column_names = ['id', 'data_imbalance'] + detected_files = pd.DataFrame(detected_files, columns=column_names) + + check_shared_data_imblance(stragglers_count, detected_files, file_map) + + # POSIX_F_FASTEST_RANK_TIME + # POSIX_F_SLOWEST_RANK_TIME + # POSIX_F_VARIANCE_RANK_TIME + + stragglers_count = 0 + + detected_files = [] + for id in shared_files: + df_posix_in_one_file = df_posix[(df_posix['file_id'] == id)] + total_transfer_time = df_posix_in_one_file['duration'].sum() + + df_detected = df_posix_in_one_file.groupby('rank')['duration'].sum().reset_index() + + slowest_rank_time = df_detected['duration'].max() + fastest_rank_time = df_detected['duration'].min() + + if total_transfer_time and abs(slowest_rank_time - fastest_rank_time) / total_transfer_time > thresholds['imbalance_stragglers'][0]: + stragglers_count += 1 + + detected_files.append([ + id, abs(slowest_rank_time - fastest_rank_time) / total_transfer_time * 100 + ]) + + column_names = ['id', 'time_imbalance'] + detected_files = pd.DataFrame(detected_files, columns=column_names) + + check_shared_time_imbalance(stragglers_count, detected_files, file_map) + + # Get the individual files responsible for imbalance + + imbalance_count = 0 + + detected_files = [] + for id in file_map.keys(): + if id in shared_files: continue + df_detected = df_posix[(df_posix['file_id'] == id) & ~(df_posix['function'].str.contains('read'))] + + max_bytes_written = df_detected['size'].max() + min_bytes_written = df_detected['size'].min() + + if max_bytes_written and abs(max_bytes_written - min_bytes_written) / max_bytes_written > thresholds['imbalance_size'][0]: + imbalance_count += 1 + + detected_files.append([ + id, abs(max_bytes_written - min_bytes_written) / max_bytes_written * 100 + ]) + + column_names = ['id', 'write_imbalance'] + detected_files = pd.DataFrame(detected_files, columns=column_names) + + check_individual_write_imbalance(imbalance_count, detected_files, file_map) + + imbalance_count = 0 + + detected_files = [] + for id in shared_files: + df_detected = df_posix[(df_posix['file_id'] == id) & (df_posix['function'].str.contains('read'))] + + max_bytes_read = df_detected['size'].max() + min_bytes_read = df_detected['size'].min() + + if max_bytes_read and abs(max_bytes_read - min_bytes_read) / max_bytes_read > thresholds['imbalance_size'][0]: + imbalance_count += 1 + + detected_files.append([ + id, abs(max_bytes_read - min_bytes_read) / max_bytes_read * 100 + ]) + + column_names = ['id', 'read_imbalance'] + detected_files = pd.DataFrame(detected_files, columns=column_names) + + check_individual_read_imbalance(imbalance_count, detected_files, file_map) + + ######################################################################################################################################################################### + + if df_intervals['api'].eq('MPI-IO').any(): + df_mpiio = df_intervals[(df_intervals['api'] == 'MPI-IO')] + + df_mpiio_reads = df_mpiio[(df_mpiio['function'].str.contains('read'))] + mpiio_indep_reads = len(df_mpiio_reads[~(df_mpiio_reads['function'].str.contains('_all'))]) + mpiio_coll_reads = len(df_mpiio_reads[(df_mpiio_reads['function'].str.contains('_all'))]) + total_mpiio_read_operations = mpiio_indep_reads + mpiio_coll_reads + + df_mpiio_writes = df_mpiio[~(df_mpiio['function'].str.contains('read'))] + mpiio_indep_writes = len(df_mpiio_writes[~(df_mpiio_writes['function'].str.contains('_all'))]) + mpiio_coll_writes = len(df_mpiio_writes[(df_mpiio_writes['function'].str.contains('_all'))]) + total_mpiio_write_operations = mpiio_indep_writes + mpiio_coll_writes + + detected_files = [] + if mpiio_coll_reads == 0 and total_mpiio_read_operations and total_mpiio_read_operations > thresholds['collective_operations_absolute'][0]: + for id in file_map.keys(): + indep_read_count = df_mpiio_reads[~(df_mpiio_reads['function'].str.contains('_all')) & (df_mpiio_reads['file_id'] == id)] + indep_write_count = df_mpiio_writes[~(df_mpiio_writes['function'].str.contains('_all')) & (df_mpiio_writes['file_id'] == id)] + indep_total_count = indep_read_count + indep_write_count + + if (indep_total_count > thresholds['collective_operations_absolute'][0] and indep_read_count / indep_total_count > thresholds['collective_operations'][0]): + detected_files.append([ + id, indep_read_count, indep_read_count / indep_total_count * 100 + ]) + + column_names = ['id', 'absolute_indep_reads', 'percent_indep_reads'] + detected_files = pd.DataFrame(detected_files, columns=column_names) + + check_mpi_collective_read_operation(mpiio_coll_reads, mpiio_indep_reads, total_mpiio_read_operations, detected_files, file_map) + + detected_files = [] + if mpiio_coll_writes == 0 and total_mpiio_write_operations and total_mpiio_write_operations > thresholds['collective_operations_absolute'][0]: + for id in file_map.keys(): + indep_read_count = df_mpiio_reads[~(df_mpiio_reads['function'].str.contains('_all')) & (df_mpiio_reads['file_id'] == id)] + indep_write_count = df_mpiio_writes[~(df_mpiio_writes['function'].str.contains('_all')) & (df_mpiio_writes['file_id'] == id)] + indep_total_count = indep_read_count + indep_write_count + + if (indep_total_count > thresholds['collective_operations_absolute'][0] and indep_write_count / indep_total_count > thresholds['collective_operations'][0]): + detected_files.append([ + id, indep_write_count, indep_write_count / indep_total_count * 100 + ]) + + column_names = ['id', 'absolute_indep_writes', 'percent_indep_writes'] + detected_files = pd.DataFrame(detected_files, columns=column_names) + + check_mpi_collective_write_operation(mpiio_coll_writes, mpiio_indep_writes, total_mpiio_write_operations, detected_files, file_map) + + ######################################################################################################################################################################### + + # Look for usage of non-block operations + + # Look for HDF5 file extension + + has_hdf5_extension = False + + for id in file_map.keys(): + fname = file_map[id] + if fname.endswith('.h5') or fname.endswith('.hdf5'): + has_hdf5_extension = True + + mpiio_nb_reads = len(df_mpiio_reads[(df_mpiio_reads['function'].str.contains('iread|begin|end'))]) + mpiio_nb_writes = len(df_mpiio_writes[(df_mpiio_writes['function'].str.contains('iwrite|begin|end'))]) + + check_mpi_none_block_operation(mpiio_nb_reads, mpiio_nb_writes, has_hdf5_extension, modules) + + ######################################################################################################################################################################### + + # Nodes and MPI-IO aggregators + # If the application uses collective reads or collective writes, look for the number of aggregators + # TODO: + + ######################################################################################################################################################################### + + insights_end_time = time.time() + + console.print() + + console.print( + Panel( + '\n'.join([ + ' [b]TAU[/b]: [white]{}[/white]'.format( + os.path.basename(args.log_path) + ), + ' [b]FILES[/b]: [white]{} files ({} use STDIO, {} use POSIX, {} use MPI-IO)[/white]'.format( + total_files, + total_files_stdio, + total_files_posix - total_files_mpiio, # Since MPI-IO files will always use POSIX, we can decrement to get a unique count + total_files_mpiio + ), + ' [b]PROCESSES[/b] [white]{}[/white]'.format( + df_intervals['rank'].nunique() + ), + ]), + title='[b][slate_blue3]DRISHTI[/slate_blue3] v.0.5[/b]', + title_align='left', + subtitle='[red][b]{} critical issues[/b][/red], [orange1][b]{} warnings[/b][/orange1], and [white][b]{} recommendations[/b][/white]'.format( + insights_total[HIGH], + insights_total[WARN], + insights_total[RECOMMENDATIONS], + ), + subtitle_align='left', + padding=1 + ) + ) + + console.print() + + display_content(console) + display_thresholds(console) + display_footer(console, insights_start_time, insights_end_time) + + filename = '{}.html'.format(args.log_path) + export_html(console, filename) + + filename = '{}.svg'.format(args.log_path) + export_svg(console, filename) + + filename = '{}-summary.csv'.format(args.log_path) + export_csv(filename) + diff --git a/drishti/includes/module.py b/drishti/includes/module.py index c5ab9cc..dedaa09 100644 --- a/drishti/includes/module.py +++ b/drishti/includes/module.py @@ -3,6 +3,7 @@ import datetime import csv import time +import pandas as pd from rich import box from rich.syntax import Syntax from drishti.includes.config import * @@ -129,7 +130,7 @@ def check_size_intensive(total_size, total_read_size, total_written_size): ) -def check_small_operation(total_reads, total_reads_small, total_writes, total_writes_small, detected_files, modules, file_map, df_posix=None): +def check_small_operation(total_reads, total_reads_small, total_writes, total_writes_small, detected_files, modules, file_map, dxt_posix=None, dxt_posix_read_data=None, dxt_posix_write_data=None): ''' Check whether application has performed an excessive number of small operations @@ -154,7 +155,7 @@ def check_small_operation(total_reads, total_reads_small, total_writes, total_wr detail = [] recommendation = [] - + file_count = 0 dxt_trigger_time = 0 for index, row in detected_files.iterrows(): @@ -179,17 +180,17 @@ def check_small_operation(total_reads, total_reads_small, total_writes, total_wr if not temp_df.empty: temp_df = temp_df.loc[temp_df['length'] < thresholds['small_requests'][0]] small_read_requests_ranks = temp_df['rank'].unique() - - if int(small_read_requests_ranks[0]) == 0 and len(small_read_requests_ranks) > 1: - rank_df = temp.loc[(temp['rank'] == int(small_read_requests_ranks[1]))] - else: - rank_df = temp.loc[(temp['rank'] == int(small_read_requests_ranks[0]))] + if len(small_read_requests_ranks) > 0: + if len(small_read_requests_ranks) > 1 and int(small_read_requests_ranks[0]) == 0: + rank_df = temp.loc[(temp['rank'] == int(small_read_requests_ranks[1]))] + else: + rank_df = temp.loc[(temp['rank'] == int(small_read_requests_ranks[0]))] - rank_df = rank_df['read_segments'].iloc[0] - rank_addresses = rank_df['stack_memory_addresses'].iloc[0] - address = dxt_posix.iloc[0]['address_line_mapping']['address'] - res = set(list(address)) & set(rank_addresses) - backtrace = dxt_posix.iloc[0]['address_line_mapping'].loc[dxt_posix.iloc[0]['address_line_mapping']['address'].isin(res)] + rank_df = rank_df['read_segments'].iloc[0] + rank_addresses = rank_df['stack_memory_addresses'].iloc[0] + address = dxt_posix.iloc[0]['address_line_mapping']['address'] + res = set(list(address)) & set(rank_addresses) + backtrace = dxt_posix.iloc[0]['address_line_mapping'].loc[dxt_posix.iloc[0]['address_line_mapping']['address'].isin(res)] if len(small_read_requests_ranks) > 0: detail.append( @@ -263,7 +264,7 @@ def check_small_operation(total_reads, total_reads_small, total_writes, total_wr detail = [] recommendation = [] - + file_count = 0 for index, row in detected_files.iterrows(): if row['total_writes'] > (total_writes * thresholds['small_requests'][0] / 2): detail.append( @@ -286,19 +287,19 @@ def check_small_operation(total_reads, total_reads_small, total_writes, total_wr if not temp_df.empty: temp_df = temp_df.loc[temp_df['length'] < thresholds['small_requests'][0]] small_write_requests_ranks = temp_df['rank'].unique() - - if int(small_write_requests_ranks[0]) == 0 and len(small_write_requests_ranks) > 1: - rank_df = temp.loc[(temp['rank'] == int(small_write_requests_ranks[1]))] - else: - rank_df = temp.loc[(temp['rank'] == int(small_write_requests_ranks[0]))] + if len(small_write_requests_ranks) > 0: + if int(small_write_requests_ranks[0]) == 0 and len(small_write_requests_ranks) > 1: + rank_df = temp.loc[(temp['rank'] == int(small_write_requests_ranks[1]))] + else: + rank_df = temp.loc[(temp['rank'] == int(small_write_requests_ranks[0]))] + + rank_df = temp.loc[(temp['rank'] == int(small_write_requests_ranks[0]))] + rank_df = rank_df['write_segments'].iloc[0] + rank_addresses = rank_df['stack_memory_addresses'].iloc[0] + address = dxt_posix.iloc[0]['address_line_mapping']['address'] + res = set(list(address)) & set(rank_addresses) + backtrace = dxt_posix.iloc[0]['address_line_mapping'].loc[dxt_posix.iloc[0]['address_line_mapping']['address'].isin(res)] - rank_df = temp.loc[(temp['rank'] == int(small_write_requests_ranks[0]))] - rank_df = rank_df['write_segments'].iloc[0] - rank_addresses = rank_df['stack_memory_addresses'].iloc[0] - address = dxt_posix.iloc[0]['address_line_mapping']['address'] - res = set(list(address)) & set(rank_addresses) - backtrace = dxt_posix.iloc[0]['address_line_mapping'].loc[dxt_posix.iloc[0]['address_line_mapping']['address'].isin(res)] - if len(small_write_requests_ranks) > 0: detail.append( { @@ -363,7 +364,7 @@ def check_small_operation(total_reads, total_reads_small, total_writes, total_wr ) -def check_misaligned(total_operations, total_mem_not_aligned, total_file_not_aligned, modules): +def check_misaligned(total_operations, total_mem_not_aligned, total_file_not_aligned, modules, file_map=None, df_lustre=None, dxt_posix=None, dxt_posix_read_data=None): ''' Check whether application has excessive misaligned operations @@ -412,7 +413,6 @@ def check_misaligned(total_operations, total_mem_not_aligned, total_file_not_ali # DXT Analysis if args.backtrace: start = time.time() - df_lustre = report.records['LUSTRE'].to_df() if not df_lustre['counters']['LUSTRE_STRIPE_SIZE'].empty: stripe_size = df_lustre['counters']['LUSTRE_STRIPE_SIZE'].iloc[0] @@ -491,7 +491,7 @@ def check_misaligned(total_operations, total_mem_not_aligned, total_file_not_ali ) -def check_traffic(max_read_offset, total_read_size, max_write_offset, total_written_size): +def check_traffic(max_read_offset, total_read_size, max_write_offset, total_written_size, dxt_posix=None, dxt_posix_read_data=None, dxt_posix_write_data=None): ''' Check whether application has redundant read or write traffic @@ -516,7 +516,7 @@ def check_traffic(max_read_offset, total_read_size, max_write_offset, total_writ if file_count < thresholds['backtrace'][0]: temp = dxt_posix.loc[dxt_posix['id'] == id] - redundant_ranks_ind = -1 + random_ranks_ind = -1 temp_df = dxt_posix_read_data.loc[dxt_posix_read_data['id'] == id] updated_offsets = (temp_df["offsets"].to_numpy()).tolist() @@ -528,6 +528,7 @@ def check_traffic(max_read_offset, total_read_size, max_write_offset, total_writ if random_ranks_ind != -1: random_rank = temp_df.iloc[redundant_ranks_ind]['rank'] random_offsets = temp_df.iloc[redundant_ranks_ind]['offsets'] + random_start_time = temp_df.iloc[random_ranks_ind]['start_time'] temp_random_rank = temp.loc[(temp['rank'] == int(random_rank))] temp_random_rank = temp_random_rank['read_segments'].iloc[0] @@ -585,7 +586,7 @@ def check_traffic(max_read_offset, total_read_size, max_write_offset, total_writ if file_count < thresholds['backtrace'][0]: temp = dxt_posix.loc[dxt_posix['id'] == id] - redundant_ranks_ind = -1 + random_ranks_ind = -1 temp_df = dxt_posix_write_data.loc[dxt_posix_write_data['id'] == id] updated_offsets = (temp_df["offsets"].to_numpy()).tolist() for i in range(len(updated_offsets)): @@ -596,6 +597,7 @@ def check_traffic(max_read_offset, total_read_size, max_write_offset, total_writ if random_ranks_ind != -1: random_rank = temp_df.iloc[redundant_ranks_ind]['rank'] random_offsets = temp_df.iloc[redundant_ranks_ind]['offsets'] + random_start_time = temp_df.iloc[random_ranks_ind]['start_time'] temp_random_rank = temp.loc[(temp['rank'] == int(random_rank))] temp_random_rank = temp_random_rank['write_segments'].iloc[0] @@ -643,7 +645,7 @@ def check_traffic(max_read_offset, total_read_size, max_write_offset, total_writ ) -def check_random_operation(read_consecutive, read_sequential, read_random, total_reads, write_consecutive, write_sequential, write_random, total_writes): +def check_random_operation(read_consecutive, read_sequential, read_random, total_reads, write_consecutive, write_sequential, write_random, total_writes, dxt_posix=None, dxt_posix_read_data=None, dxt_posix_write_data=None): ''' Check whether application has performed excessive random operations @@ -941,7 +943,7 @@ def check_long_metadata(count_long_metadata, modules): ) -def check_shared_data_imblance(stragglers_count, detected_files, file_map): +def check_shared_data_imblance(stragglers_count, detected_files, file_map, dxt_posix=None, dxt_posix_read_data=None, dxt_posix_write_data=None): ''' Check how many shared files containing data transfer imbalance @@ -977,9 +979,9 @@ def check_shared_data_imblance(stragglers_count, detected_files, file_map): if args.backtrace: start = time.time() if file_count < thresholds['backtrace'][0]: - temp = dxt_posix.loc[dxt_posix['id'] == int(file[0])] - temp_df_1 = dxt_posix_write_data.loc[dxt_posix_write_data['id'] == int(file[0])] - temp_df_2 = dxt_posix_read_data.loc[dxt_posix_read_data['id'] == int(file[0])] + temp = dxt_posix.loc[dxt_posix['id'] == int(row['id'])] + temp_df_1 = dxt_posix_write_data.loc[dxt_posix_write_data['id'] == int(row['id'])] + temp_df_2 = dxt_posix_read_data.loc[dxt_posix_read_data['id'] == int(row['id'])] df_merged = pd.concat([temp_df_1, temp_df_2], ignore_index=True, sort=False) df_merged['duration'] = df_merged['end_time'] - df_merged['start_time'] @@ -1156,7 +1158,7 @@ def check_shared_time_imbalance_split(slowest_rank_time, fastest_rank_time, tota ) -def check_individual_write_imbalance(imbalance_count, detected_files, file_map): +def check_individual_write_imbalance(imbalance_count, detected_files, file_map, dxt_posix=None, dxt_posix_write_data=None): ''' Check how many write imbalance when accessing individual files @@ -1191,8 +1193,8 @@ def check_individual_write_imbalance(imbalance_count, detected_files, file_map): if args.backtrace: start = time.time() if file_count < thresholds['backtrace'][0]: - temp = dxt_posix.loc[dxt_posix['id'] == int(file[0])] - temp_df = dxt_posix_write_data.loc[dxt_posix_write_data['id'] == int(file[0])] + temp = dxt_posix.loc[dxt_posix['id'] == int(row['id'])] + temp_df = dxt_posix_write_data.loc[dxt_posix_write_data['id'] == int(row['id'])] maxClm = temp_df['length'].max() temp_df = temp_df.loc[(temp_df['length'] == maxClm)] @@ -1297,7 +1299,7 @@ def check_individual_write_imbalance_split(max_bytes_written, min_bytes_written) ) -def check_individual_read_imbalance(imbalance_count, detected_files, file_map): +def check_individual_read_imbalance(imbalance_count, detected_files, file_map, dxt_posix=None, dxt_posix_read_data=None): ''' Check how many read imbalance when accessing individual files @@ -1332,8 +1334,8 @@ def check_individual_read_imbalance(imbalance_count, detected_files, file_map): if args.backtrace: start = time.time() if file_count < thresholds['backtrace'][0]: - temp = dxt_posix.loc[dxt_posix['id'] == int(file[0])] - temp_df = dxt_posix_read_data.loc[dxt_posix_read_data['id'] == int(file[0])] + temp = dxt_posix.loc[dxt_posix['id'] == int(row['id'])] + temp_df = dxt_posix_read_data.loc[dxt_posix_read_data['id'] == int(row['id'])] maxClm = temp_df['length'].max() temp_df = temp_df.loc[(temp_df['length'] == maxClm)] @@ -1440,7 +1442,7 @@ def check_individual_read_imbalance_split(max_bytes_read, min_bytes_read): # MPIIO level check -def check_mpi_collective_read_operation(mpiio_coll_reads, mpiio_indep_reads, total_mpiio_read_operations, detected_files, file_map): +def check_mpi_collective_read_operation(mpiio_coll_reads, mpiio_indep_reads, total_mpiio_read_operations, detected_files, file_map, dxt_mpiio=None): ''' Check whether application uses collective mpi read calls @@ -1533,7 +1535,7 @@ def check_mpi_collective_read_operation(mpiio_coll_reads, mpiio_indep_reads, tot ) -def check_mpi_collective_write_operation(mpiio_coll_writes, mpiio_indep_writes, total_mpiio_write_operations, detected_files, file_map): +def check_mpi_collective_write_operation(mpiio_coll_writes, mpiio_indep_writes, total_mpiio_write_operations, detected_files, file_map, dxt_mpiio=None): ''' Check whether application uses collective mpi write calls diff --git a/drishti/includes/supports/__init__.py b/drishti/includes/supports/__init__.py new file mode 100644 index 0000000..e69de29 diff --git a/drishti/includes/supports/lookup3.py b/drishti/includes/supports/lookup3.py new file mode 100644 index 0000000..37478bb --- /dev/null +++ b/drishti/includes/supports/lookup3.py @@ -0,0 +1,71 @@ +# Need to constrain U32 to only 32 bits using the & 0xffffffff +# since Python has no native notion of integers limited to 32 bit +# http://docs.python.org/library/stdtypes.html#numeric-types-int-float-long-complex + +'''Original copyright notice: + By Bob Jenkins, 1996. bob_jenkins@burtleburtle.net. You may use this + code any way you wish, private, educational, or commercial. Its free. +''' + +def rot(x,k): + return (((x)<<(k)) | ((x)>>(32-(k)))) + +def mix(a, b, c): + a &= 0xffffffff; b &= 0xffffffff; c &= 0xffffffff + a -= c; a &= 0xffffffff; a ^= rot(c,4); a &= 0xffffffff; c += b; c &= 0xffffffff + b -= a; b &= 0xffffffff; b ^= rot(a,6); b &= 0xffffffff; a += c; a &= 0xffffffff + c -= b; c &= 0xffffffff; c ^= rot(b,8); c &= 0xffffffff; b += a; b &= 0xffffffff + a -= c; a &= 0xffffffff; a ^= rot(c,16); a &= 0xffffffff; c += b; c &= 0xffffffff + b -= a; b &= 0xffffffff; b ^= rot(a,19); b &= 0xffffffff; a += c; a &= 0xffffffff + c -= b; c &= 0xffffffff; c ^= rot(b,4); c &= 0xffffffff; b += a; b &= 0xffffffff + return a, b, c + +def final(a, b, c): + a &= 0xffffffff; b &= 0xffffffff; c &= 0xffffffff + c ^= b; c &= 0xffffffff; c -= rot(b,14); c &= 0xffffffff + a ^= c; a &= 0xffffffff; a -= rot(c,11); a &= 0xffffffff + b ^= a; b &= 0xffffffff; b -= rot(a,25); b &= 0xffffffff + c ^= b; c &= 0xffffffff; c -= rot(b,16); c &= 0xffffffff + a ^= c; a &= 0xffffffff; a -= rot(c,4); a &= 0xffffffff + b ^= a; b &= 0xffffffff; b -= rot(a,14); b &= 0xffffffff + c ^= b; c &= 0xffffffff; c -= rot(b,24); c &= 0xffffffff + return a, b, c + +def hashlittle2(data, initval = 0, initval2 = 0): + length = lenpos = len(data) + + a = b = c = (0xdeadbeef + (length) + initval) + + c += initval2; c &= 0xffffffff + + p = 0 # string offset + while lenpos > 12: + a += (ord(data[p+0]) + (ord(data[p+1])<<8) + (ord(data[p+2])<<16) + (ord(data[p+3])<<24)); a &= 0xffffffff + b += (ord(data[p+4]) + (ord(data[p+5])<<8) + (ord(data[p+6])<<16) + (ord(data[p+7])<<24)); b &= 0xffffffff + c += (ord(data[p+8]) + (ord(data[p+9])<<8) + (ord(data[p+10])<<16) + (ord(data[p+11])<<24)); c &= 0xffffffff + a, b, c = mix(a, b, c) + p += 12 + lenpos -= 12 + + if lenpos == 12: c += (ord(data[p+8]) + (ord(data[p+9])<<8) + (ord(data[p+10])<<16) + (ord(data[p+11])<<24)); b += (ord(data[p+4]) + (ord(data[p+5])<<8) + (ord(data[p+6])<<16) + (ord(data[p+7])<<24)); a += (ord(data[p+0]) + (ord(data[p+1])<<8) + (ord(data[p+2])<<16) + (ord(data[p+3])<<24)); + if lenpos == 11: c += (ord(data[p+8]) + (ord(data[p+9])<<8) + (ord(data[p+10])<<16)); b += (ord(data[p+4]) + (ord(data[p+5])<<8) + (ord(data[p+6])<<16) + (ord(data[p+7])<<24)); a += (ord(data[p+0]) + (ord(data[p+1])<<8) + (ord(data[p+2])<<16) + (ord(data[p+3])<<24)); + if lenpos == 10: c += (ord(data[p+8]) + (ord(data[p+9])<<8)); b += (ord(data[p+4]) + (ord(data[p+5])<<8) + (ord(data[p+6])<<16) + (ord(data[p+7])<<24)); a += (ord(data[p+0]) + (ord(data[p+1])<<8) + (ord(data[p+2])<<16) + (ord(data[p+3])<<24)); + if lenpos == 9: c += (ord(data[p+8])); b += (ord(data[p+4]) + (ord(data[p+5])<<8) + (ord(data[p+6])<<16) + (ord(data[p+7])<<24)); a += (ord(data[p+0]) + (ord(data[p+1])<<8) + (ord(data[p+2])<<16) + (ord(data[p+3])<<24)); + if lenpos == 8: b += (ord(data[p+4]) + (ord(data[p+5])<<8) + (ord(data[p+6])<<16) + (ord(data[p+7])<<24)); a += (ord(data[p+0]) + (ord(data[p+1])<<8) + (ord(data[p+2])<<16) + (ord(data[p+3])<<24)); + if lenpos == 7: b += (ord(data[p+4]) + (ord(data[p+5])<<8) + (ord(data[p+6])<<16)); a += (ord(data[p+0]) + (ord(data[p+1])<<8) + (ord(data[p+2])<<16) + (ord(data[p+3])<<24)); + if lenpos == 6: b += ((ord(data[p+5])<<8) + ord(data[p+4])); a += (ord(data[p+0]) + (ord(data[p+1])<<8) + (ord(data[p+2])<<16) + (ord(data[p+3])<<24)) + if lenpos == 5: b += (ord(data[p+4])); a += (ord(data[p+0]) + (ord(data[p+1])<<8) + (ord(data[p+2])<<16) + (ord(data[p+3])<<24)); + if lenpos == 4: a += (ord(data[p+0]) + (ord(data[p+1])<<8) + (ord(data[p+2])<<16) + (ord(data[p+3])<<24)) + if lenpos == 3: a += (ord(data[p+0]) + (ord(data[p+1])<<8) + (ord(data[p+2])<<16)) + if lenpos == 2: a += (ord(data[p+0]) + (ord(data[p+1])<<8)) + if lenpos == 1: a += ord(data[p+0]) + a &= 0xffffffff; b &= 0xffffffff; c &= 0xffffffff + if lenpos == 0: return c, b + + a, b, c = final(a, b, c) + + return c, b + +def hashlittle(data, initval=0): + c, b = hashlittle2(data, initval, 0) + return c \ No newline at end of file diff --git a/drishti/includes/supports/otf2csv.py b/drishti/includes/supports/otf2csv.py new file mode 100644 index 0000000..4299b28 --- /dev/null +++ b/drishti/includes/supports/otf2csv.py @@ -0,0 +1,115 @@ +#! /usr/bin/env python3 + +import csv +import otf2 +import argparse + +from typing import Dict, Any +from collections import defaultdict +from drishti.includes.supports.lookup3 import hashlittle + + +def file_name(handle: otf2.definitions.IoHandle) -> str: + ''' Extract the correct name from `IoHandle`, which is either the file name + or the handle name. ''' + try: + return handle.file.name + except AttributeError: + return handle.name + + +def ignored_file(filename): + ignored_prefixes = {'/sys/', '/proc', '/etc/', 'STDIN_FILENO', 'STDOUT_FILENO', 'STDERR_FILENO', '/cvmfs/'} + for prefix in ignored_prefixes: + if filename.startswith(prefix): + return True + return False + + +def isIoOperation(function): + posixOperations = {'read', 'write', 'fgets', 'fread', 'fwrite', 'pread', 'pwrite', 'pread64', 'pwrite64'} + mpiOperations = {'MPI_File_iread', 'MPI_File_iread_shared', 'MPI_File_iread_at', + 'MPI_File_iwrite', 'MPI_File_iwrite_shared', 'MPI_File_iwrite_at', + 'MPI_File_read_all_begin', 'MPI_File_read_all', 'MPI_File_read_at', 'MPI_File_read_at_all', 'MPI_File_read_at_all_begin', + 'MPI_File_write_all_begin', 'MPI_File_write_all', 'MPI_File_write_at', 'MPI_File_write_at_all', 'MPI_File_write_at_all_begin', + 'MPI_File_read_ordered_begin', 'MPI_File_read_ordered', + 'MPI_File_write_ordered_begin', 'MPI_File_write_ordered', + 'MPI_File_read_shared', 'MPI_File_write_shared'} + + if function in posixOperations or function in mpiOperations: + return True + return False + +def otf2_to_csv(tracefile: str, csvfile: str) -> None: + ''' Open `tracefile` and write it as CSV in to `csvfile`. ''' + rank_stat = defaultdict(dict) + file_map = {} + + TIMER_GRANULARITY = 1000000 + start_time = 0 + + with otf2.reader.open(tracefile) as trace: + + with open(csvfile, "w") as outfile: + writer = csv.writer(outfile) + writer.writerow(['file_name', 'file_id', 'function', 'rank', 'start', 'end', 'size', 'offset']) + + for location, event in trace.events: + + if isinstance(event, otf2.events.ProgramBegin): + + start_time = event.time + + elif isinstance(event, otf2.events.Metric): + metric_class = event.metric + metric_value = event.values + + print(metric_class) + + + elif isinstance(event, otf2.events.Enter): + region_name = event.region.name + if region_name.endswith('()'): + region_name = region_name[:-2] + + if isIoOperation(region_name): + rank_stat[location.group.name]['function'] = region_name + + #print(region_name) + + elif isinstance(event, otf2.events.IoOperationBegin): + filename = file_name(event.handle) + + if filename and not ignored_file(filename): + + if filename not in file_map: + file_map[filename] = hashlittle(filename) + + attributes: Dict[str, Any] = {} + if event.attributes: + attributes = {attr.name.lower(): value for attr, value in event.attributes.items()} + + rank_stat[location.group.name]['start'] = (event.time - start_time) / TIMER_GRANULARITY + rank_stat[location.group.name]['filename'] = filename + rank_stat[location.group.name]['fileid'] = file_map[filename] + rank_stat[location.group.name]['size'] = event.bytes_request + if 'offset' in attributes: + rank_stat[location.group.name]['offset'] = attributes['offset'] + else: + rank_stat[location.group.name]['offset'] = 'Unknown' + + elif isinstance(event, otf2.events.IoOperationComplete): + filename = file_name(event.handle) + if filename and not ignored_file(filename): + rank = location.group.name + + function = rank_stat[rank]['function'] + filename = rank_stat[rank]['filename'] + fileid = rank_stat[rank]['fileid'] + start = rank_stat[rank]['start'] + end = (event.time - start_time) / TIMER_GRANULARITY + size = rank_stat[rank]['size'] + offset = rank_stat[rank]['offset'] + writer.writerow([filename, fileid, function, rank.split()[2], start, end, size, offset]) + + else: continue diff --git a/drishti/reporter.py b/drishti/reporter.py index 8455040..9dcc709 100644 --- a/drishti/reporter.py +++ b/drishti/reporter.py @@ -20,6 +20,7 @@ LOG_TYPE_DARSHAN = 0 LOG_TYPE_RECORDER = 1 +LOG_TYPE_TAU = 2 def clear(): @@ -35,11 +36,16 @@ def check_log_type(path): print('Unable to open .darshan file.') sys.exit(os.EX_NOINPUT) else: return LOG_TYPE_DARSHAN - else: # check whether is a valid recorder log + else: # check whether is a valid recorder log or tau log if not os.path.isdir(path): - print('Unable to open recorder folder.') + print('Unable to open the folder.') sys.exit(os.EX_NOINPUT) - else: return LOG_TYPE_RECORDER + else: + for file in os.listdir(path): + if file == 'traces.otf2': + return LOG_TYPE_TAU + elif file == 'recorder.mt': + return LOG_TYPE_RECORDER def main(): @@ -50,6 +56,9 @@ def main(): elif log_type == LOG_TYPE_RECORDER: from drishti.handlers.handle_recorder import handler + + elif log_type == LOG_TYPE_TAU: + from drishti.handlers.handle_tau import handler handler() diff --git a/requirements.txt b/requirements.txt index 65461cb..4c6eda8 100644 --- a/requirements.txt +++ b/requirements.txt @@ -2,4 +2,4 @@ argparse darshan==3.4.4.0 pandas rich==12.5.1 -recorder-utils +recorder-utils \ No newline at end of file diff --git a/sample/jlbez_8a_benchmark_write_parallel_id1321662_8-21-5892-15802854900629188750_106.darshan b/sample/darshan/jlbez_8a_benchmark_write_parallel_id1321662_8-21-5892-15802854900629188750_106.darshan similarity index 100% rename from sample/jlbez_8a_benchmark_write_parallel_id1321662_8-21-5892-15802854900629188750_106.darshan rename to sample/darshan/jlbez_8a_benchmark_write_parallel_id1321662_8-21-5892-15802854900629188750_106.darshan diff --git 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