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workflow run
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@bulricht @github-actions
bulricht authored and github-actions[bot] committed Jan 1, 2024
1 parent 93f73be commit 2cb6d50
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Showing 17 changed files with 264 additions and 334 deletions.
56 changes: 14 additions & 42 deletions data-quality-control/dqc.csv
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2 changes: 0 additions & 2 deletions data-quality-control/logfile
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Original file line number Diff line number Diff line change
@@ -1,2 +0,0 @@
ERROR:py_data_rules.rule_engine:rule evaluation failed for arr_date_hq_after_ship_date with exception ValueError: time data 'to_ship_Se' does not match format '%Y-%m-%d'
ERROR:py_data_rules.rule_engine:rule evaluation failed for ship_date_after_samp_store_date with exception ValueError: time data 'to_ship_Se' does not match format '%Y-%m-%d'
40 changes: 0 additions & 40 deletions data-quality-control/report.csv
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Original file line number Diff line number Diff line change
Expand Up @@ -5,28 +5,6 @@ x after y violation,sediment,sampling,ship_date_seq,45,2022-07-18 00:00:00,ship_
x after y violation,sediment,sampling,ship_date_seq,46,2022-07-18 00:00:00,ship_date_seq must be after ship_date (y = 2022-09-26 00:00:00),/github/workspace/logsheets-filtered/sediment_sampling.csv,XSDDate,mandatory
x after y violation,sediment,sampling,ship_date_seq,61,2022-07-18 00:00:00,ship_date_seq must be after ship_date (y = 2022-09-26 00:00:00),/github/workspace/logsheets-filtered/sediment_sampling.csv,XSDDate,mandatory
x after y violation,sediment,sampling,ship_date_seq,62,2022-07-18 00:00:00,ship_date_seq must be after ship_date (y = 2022-09-26 00:00:00),/github/workspace/logsheets-filtered/sediment_sampling.csv,XSDDate,mandatory
missing value,sediment,measured,sea_surf_temp,122,<empty>,\,/github/workspace/logsheets-filtered/sediment_measured.csv,XSDFloat,mandatory
missing value,sediment,measured,sea_surf_temp,123,<empty>,\,/github/workspace/logsheets-filtered/sediment_measured.csv,XSDFloat,mandatory
missing value,sediment,measured,sea_surf_temp,124,<empty>,\,/github/workspace/logsheets-filtered/sediment_measured.csv,XSDFloat,mandatory
missing value,sediment,measured,sea_surf_temp,125,<empty>,\,/github/workspace/logsheets-filtered/sediment_measured.csv,XSDFloat,mandatory
missing value,sediment,measured,sea_surf_temp,126,<empty>,\,/github/workspace/logsheets-filtered/sediment_measured.csv,XSDFloat,mandatory
missing value,sediment,measured,sea_surf_temp,127,<empty>,\,/github/workspace/logsheets-filtered/sediment_measured.csv,XSDFloat,mandatory
missing value,sediment,measured,sea_surf_temp,128,<empty>,\,/github/workspace/logsheets-filtered/sediment_measured.csv,XSDFloat,mandatory
missing value,sediment,measured,sea_surf_temp,129,<empty>,\,/github/workspace/logsheets-filtered/sediment_measured.csv,XSDFloat,mandatory
missing value,sediment,measured,sea_surf_temp,130,<empty>,\,/github/workspace/logsheets-filtered/sediment_measured.csv,XSDFloat,mandatory
missing value,sediment,measured,sea_surf_temp,131,<empty>,\,/github/workspace/logsheets-filtered/sediment_measured.csv,XSDFloat,mandatory
missing value,sediment,measured,sea_surf_temp,132,<empty>,\,/github/workspace/logsheets-filtered/sediment_measured.csv,XSDFloat,mandatory
missing value,sediment,measured,sediment_temp,122,<empty>,\,/github/workspace/logsheets-filtered/sediment_measured.csv,XSDFloat,mandatory
missing value,sediment,measured,sediment_temp,123,<empty>,\,/github/workspace/logsheets-filtered/sediment_measured.csv,XSDFloat,mandatory
missing value,sediment,measured,sediment_temp,124,<empty>,\,/github/workspace/logsheets-filtered/sediment_measured.csv,XSDFloat,mandatory
missing value,sediment,measured,sediment_temp,125,<empty>,\,/github/workspace/logsheets-filtered/sediment_measured.csv,XSDFloat,mandatory
missing value,sediment,measured,sediment_temp,126,<empty>,\,/github/workspace/logsheets-filtered/sediment_measured.csv,XSDFloat,mandatory
missing value,sediment,measured,sediment_temp,127,<empty>,\,/github/workspace/logsheets-filtered/sediment_measured.csv,XSDFloat,mandatory
missing value,sediment,measured,sediment_temp,128,<empty>,\,/github/workspace/logsheets-filtered/sediment_measured.csv,XSDFloat,mandatory
missing value,sediment,measured,sediment_temp,129,<empty>,\,/github/workspace/logsheets-filtered/sediment_measured.csv,XSDFloat,mandatory
missing value,sediment,measured,sediment_temp,130,<empty>,\,/github/workspace/logsheets-filtered/sediment_measured.csv,XSDFloat,mandatory
missing value,sediment,measured,sediment_temp,131,<empty>,\,/github/workspace/logsheets-filtered/sediment_measured.csv,XSDFloat,mandatory
missing value,sediment,measured,sediment_temp,132,<empty>,\,/github/workspace/logsheets-filtered/sediment_measured.csv,XSDFloat,mandatory
missing value,sediment,sampling,ENA_accession_number_sample,1,<empty>,\,/github/workspace/logsheets-filtered/sediment_sampling.csv,XSDAnyURI,mandatory
missing value,sediment,sampling,ENA_accession_number_sample,2,<empty>,\,/github/workspace/logsheets-filtered/sediment_sampling.csv,XSDAnyURI,mandatory
missing value,sediment,sampling,ENA_accession_number_sample,5,<empty>,\,/github/workspace/logsheets-filtered/sediment_sampling.csv,XSDAnyURI,mandatory
Expand Down Expand Up @@ -74,9 +52,6 @@ missing value,sediment,sampling,ENA_accession_number_sample,123,<empty>,\,/githu
missing value,sediment,sampling,ENA_accession_number_sample,124,<empty>,\,/github/workspace/logsheets-filtered/sediment_sampling.csv,XSDAnyURI,mandatory
missing value,sediment,sampling,ENA_accession_number_sample,129,<empty>,\,/github/workspace/logsheets-filtered/sediment_sampling.csv,XSDAnyURI,mandatory
missing value,sediment,sampling,ENA_accession_number_sample,130,<empty>,\,/github/workspace/logsheets-filtered/sediment_sampling.csv,XSDAnyURI,mandatory
missing value,sediment,sampling,arr_date_seq,23,<empty>,\,/github/workspace/logsheets-filtered/sediment_sampling.csv,XSDDate,mandatory
missing value,sediment,sampling,arr_date_seq,24,<empty>,\,/github/workspace/logsheets-filtered/sediment_sampling.csv,XSDDate,mandatory
missing value,sediment,sampling,arr_date_seq,52,<empty>,\,/github/workspace/logsheets-filtered/sediment_sampling.csv,XSDDate,mandatory
missing value,sediment,sampling,arr_date_seq,78,<empty>,\,/github/workspace/logsheets-filtered/sediment_sampling.csv,XSDDate,mandatory
missing value,sediment,sampling,arr_date_seq,79,<empty>,\,/github/workspace/logsheets-filtered/sediment_sampling.csv,XSDDate,mandatory
missing value,sediment,sampling,arr_date_seq,84,<empty>,\,/github/workspace/logsheets-filtered/sediment_sampling.csv,XSDDate,mandatory
Expand Down Expand Up @@ -137,9 +112,6 @@ missing value,sediment,sampling,depth,130,<empty>,\,/github/workspace/logsheets-
missing value,sediment,sampling,depth,131,<empty>,\,/github/workspace/logsheets-filtered/sediment_sampling.csv,EMOBONList,mandatory
missing value,sediment,sampling,depth,132,<empty>,\,/github/workspace/logsheets-filtered/sediment_sampling.csv,EMOBONList,mandatory
missing value,sediment,sampling,depth,133,<empty>,\,/github/workspace/logsheets-filtered/sediment_sampling.csv,EMOBONList,mandatory
missing value,sediment,sampling,ship_date_seq,23,<empty>,\,/github/workspace/logsheets-filtered/sediment_sampling.csv,XSDDate,mandatory
missing value,sediment,sampling,ship_date_seq,24,<empty>,\,/github/workspace/logsheets-filtered/sediment_sampling.csv,XSDDate,mandatory
missing value,sediment,sampling,ship_date_seq,52,<empty>,\,/github/workspace/logsheets-filtered/sediment_sampling.csv,XSDDate,mandatory
missing value,sediment,sampling,ship_date_seq,78,<empty>,\,/github/workspace/logsheets-filtered/sediment_sampling.csv,XSDDate,mandatory
missing value,sediment,sampling,ship_date_seq,79,<empty>,\,/github/workspace/logsheets-filtered/sediment_sampling.csv,XSDDate,mandatory
missing value,sediment,sampling,ship_date_seq,84,<empty>,\,/github/workspace/logsheets-filtered/sediment_sampling.csv,XSDDate,mandatory
Expand All @@ -160,12 +132,6 @@ missing value,sediment,sampling,ship_date_seq,123,<empty>,\,/github/workspace/lo
missing value,sediment,sampling,ship_date_seq,124,<empty>,\,/github/workspace/logsheets-filtered/sediment_sampling.csv,XSDDate,mandatory
missing value,sediment,sampling,ship_date_seq,129,<empty>,\,/github/workspace/logsheets-filtered/sediment_sampling.csv,XSDDate,mandatory
missing value,sediment,sampling,ship_date_seq,130,<empty>,\,/github/workspace/logsheets-filtered/sediment_sampling.csv,XSDDate,mandatory
missing value,sediment,sampling,store_temp_hq,89,<empty>,\,/github/workspace/logsheets-filtered/sediment_sampling.csv,XSDFloat,mandatory
missing value,sediment,sampling,store_temp_hq,90,<empty>,\,/github/workspace/logsheets-filtered/sediment_sampling.csv,XSDFloat,mandatory
missing value,sediment,sampling,store_temp_hq,118,<empty>,\,/github/workspace/logsheets-filtered/sediment_sampling.csv,XSDFloat,mandatory
missing value,sediment,sampling,store_temp_hq,119,<empty>,\,/github/workspace/logsheets-filtered/sediment_sampling.csv,XSDFloat,mandatory
missing value,sediment,sampling,store_temp_hq,129,<empty>,\,/github/workspace/logsheets-filtered/sediment_sampling.csv,XSDFloat,mandatory
missing value,sediment,sampling,store_temp_hq,130,<empty>,\,/github/workspace/logsheets-filtered/sediment_sampling.csv,XSDFloat,mandatory
missing value,sediment,sampling,failure,1,<empty>,\,/github/workspace/logsheets-filtered/sediment_sampling.csv,XSDBoolean,mandatory
missing value,sediment,sampling,failure,2,<empty>,\,/github/workspace/logsheets-filtered/sediment_sampling.csv,XSDBoolean,mandatory
missing value,sediment,sampling,failure,23,<empty>,\,/github/workspace/logsheets-filtered/sediment_sampling.csv,XSDBoolean,mandatory
Expand Down Expand Up @@ -772,12 +738,6 @@ missing value,water,sampling,arr_date_seq,225,<empty>,\,/github/workspace/logshe
missing value,water,sampling,arr_date_seq,226,<empty>,\,/github/workspace/logsheets-filtered/water_sampling.csv,XSDDate,mandatory
missing value,water,sampling,arr_date_seq,227,<empty>,\,/github/workspace/logsheets-filtered/water_sampling.csv,XSDDate,mandatory
missing value,water,sampling,arr_date_seq,230,<empty>,\,/github/workspace/logsheets-filtered/water_sampling.csv,XSDDate,mandatory
datatype mismatch,water,sampling,ship_date,221,to_ship_Sep_2023,\,/github/workspace/logsheets-filtered/water_sampling.csv,XSDDate,mandatory
datatype mismatch,water,sampling,ship_date,222,to_ship_Sep_2023,\,/github/workspace/logsheets-filtered/water_sampling.csv,XSDDate,mandatory
datatype mismatch,water,sampling,ship_date,225,to_ship_Sep_2023,\,/github/workspace/logsheets-filtered/water_sampling.csv,XSDDate,mandatory
datatype mismatch,water,sampling,ship_date,226,to_ship_Sep_2023,\,/github/workspace/logsheets-filtered/water_sampling.csv,XSDDate,mandatory
datatype mismatch,water,sampling,ship_date,227,to_ship_Sep_2023,\,/github/workspace/logsheets-filtered/water_sampling.csv,XSDDate,mandatory
datatype mismatch,water,sampling,ship_date,230,to_ship_Sep_2023,\,/github/workspace/logsheets-filtered/water_sampling.csv,XSDDate,mandatory
missing value,water,sampling,ship_date_seq,161,<empty>,\,/github/workspace/logsheets-filtered/water_sampling.csv,XSDDate,mandatory
missing value,water,sampling,ship_date_seq,162,<empty>,\,/github/workspace/logsheets-filtered/water_sampling.csv,XSDDate,mandatory
missing value,water,sampling,ship_date_seq,166,<empty>,\,/github/workspace/logsheets-filtered/water_sampling.csv,XSDDate,mandatory
Expand Down
22 changes: 11 additions & 11 deletions logsheets-filtered/sediment_measured.csv
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Original file line number Diff line number Diff line change
Expand Up @@ -120,17 +120,17 @@ EMOBON_BPNS_So_230425_meio_2,NA,"waves too high, no CTD possible",NA,no pH measu
EMOBON_BPNS_So_230425_meio_3,NA,"waves too high, no CTD possible",NA,no pH measured,NA,"waves too high, no CTD possible",ΝΑ,ΝΑ,,,,,,,,,,,,,,,,,,,,NA,"waves too high, no CTD possible",,,,,,,,,,,,,,,,,,,,,,,,,,,,NA,"waves too high, no CTD possible",NA,"waves too high, no CTD possible",,,,,,,,
EMOBON_BPNS_So_230425_meio_4,NA,"waves too high, no CTD possible",NA,no pH measured,NA,"waves too high, no CTD possible",ΝΑ,ΝΑ,,,,,,,,,,,,,,,,,,,,NA,"waves too high, no CTD possible",,,,,,,,,,,,,,,,,,,,,,,,,,,,NA,"waves too high, no CTD possible",NA,"waves too high, no CTD possible",,,,,,,,
EMOBON_BPNS_So_230425_meio_blank,NA,"waves too high, no CTD possible",NA,no pH measured,NA,"waves too high, no CTD possible",ΝΑ,ΝΑ,,,,,,,,,,,,,,,,,,,,NA,"waves too high, no CTD possible",,,,,,,,,,,,,,,,,,,,,,,,,,,,NA,"waves too high, no CTD possible",NA,"waves too high, no CTD possible",,,,,,,,
EMOBON_BPNS_So_230621_micro_1,,CTD,NA,no pH measured,,CTD,ΝΑ,ΝΑ,,,,,,,,,,,,,,,,,,,,,CTD,,,,,,,,,,,,,,,,,,,,,,,,,,,,,CTD,,CTD,,,,,,,,
EMOBON_BPNS_So_230621_micro_2,,CTD,NA,no pH measured,,CTD,ΝΑ,ΝΑ,,,,,,,,,,,,,,,,,,,,,CTD,,,,,,,,,,,,,,,,,,,,,,,,,,,,,CTD,,CTD,,,,,,,,
EMOBON_BPNS_So_230621_micro_3,,CTD,NA,no pH measured,,CTD,ΝΑ,ΝΑ,,,,,,,,,,,,,,,,,,,,,CTD,,,,,,,,,,,,,,,,,,,,,,,,,,,,,CTD,,CTD,,,,,,,,
EMOBON_BPNS_So_230621_micro_4,,CTD,NA,no pH measured,,CTD,ΝΑ,ΝΑ,,,,,,,,,,,,,,,,,,,,,CTD,,,,,,,,,,,,,,,,,,,,,,,,,,,,,CTD,,CTD,,,,,,,,
EMOBON_BPNS_So_230621_micro_blank,,CTD,NA,no pH measured,,CTD,ΝΑ,ΝΑ,,,,,,,,,,,,,,,,,,,,,CTD,,,,,,,,,,,,,,,,,,,,,,,,,,,,,CTD,,CTD,,,,,,,,
EMOBON_BPNS_So_230621_micro_blank,,CTD,NA,no pH measured,,CTD,ΝΑ,ΝΑ,,,,,,,,,,,,,,,,,,,,,CTD,,,,,,,,,,,,,,,,,,,,,,,,,,,,,CTD,,CTD,,,,,,,,
EMOBON_BPNS_So_230621_meio_1,,CTD,NA,no pH measured,,CTD,ΝΑ,ΝΑ,,,,,,,,,,,,,,,,,,,,,CTD,,,,,,,,,,,,,,,,,,,,,,,,,,,,,CTD,,CTD,,,,,,,,
EMOBON_BPNS_So_230621_meio_2,,CTD,NA,no pH measured,,CTD,ΝΑ,ΝΑ,,,,,,,,,,,,,,,,,,,,,CTD,,,,,,,,,,,,,,,,,,,,,,,,,,,,,CTD,,CTD,,,,,,,,
EMOBON_BPNS_So_230621_meio_3,,CTD,NA,no pH measured,,CTD,ΝΑ,ΝΑ,,,,,,,,,,,,,,,,,,,,,CTD,,,,,,,,,,,,,,,,,,,,,,,,,,,,,CTD,,CTD,,,,,,,,
EMOBON_BPNS_So_230621_meio_4,,CTD,NA,no pH measured,,CTD,ΝΑ,ΝΑ,,,,,,,,,,,,,,,,,,,,,CTD,,,,,,,,,,,,,,,,,,,,,,,,,,,,,CTD,,CTD,,,,,,,,
EMOBON_BPNS_So_230621_meio_blank,,CTD,NA,no pH measured,,CTD,ΝΑ,ΝΑ,,,,,,,,,,,,,,,,,,,,,CTD,,,,,,,,,,,,,,,,,,,,,,,,,,,,,CTD,,CTD,,,,,,,,
EMOBON_BPNS_So_230621_micro_1,16.895,CTD,NA,no pH measured,16.795,CTD,ΝΑ,ΝΑ,,,,,,,,,,,,,,,,,,,,,CTD,,,,,,,,,,,,,,,,,,,,,,,,,,,,1.0867999,CTD,32.005,CTD,,,,,,,,
EMOBON_BPNS_So_230621_micro_2,16.895,CTD,NA,no pH measured,16.795,CTD,ΝΑ,ΝΑ,,,,,,,,,,,,,,,,,,,,,CTD,,,,,,,,,,,,,,,,,,,,,,,,,,,,1.0867999,CTD,32.005,CTD,,,,,,,,
EMOBON_BPNS_So_230621_micro_3,16.895,CTD,NA,no pH measured,16.795,CTD,ΝΑ,ΝΑ,,,,,,,,,,,,,,,,,,,,,CTD,,,,,,,,,,,,,,,,,,,,,,,,,,,,1.0867999,CTD,32.005,CTD,,,,,,,,
EMOBON_BPNS_So_230621_micro_4,16.895,CTD,NA,no pH measured,16.795,CTD,ΝΑ,ΝΑ,,,,,,,,,,,,,,,,,,,,,CTD,,,,,,,,,,,,,,,,,,,,,,,,,,,,1.0867999,CTD,32.005,CTD,,,,,,,,
EMOBON_BPNS_So_230621_micro_blank,16.895,CTD,NA,no pH measured,16.795,CTD,ΝΑ,ΝΑ,,,,,,,,,,,,,,,,,,,,,CTD,,,,,,,,,,,,,,,,,,,,,,,,,,,,1.0867999,CTD,32.005,CTD,,,,,,,,
EMOBON_BPNS_So_230621_micro_blank,16.895,CTD,NA,no pH measured,16.795,CTD,ΝΑ,ΝΑ,,,,,,,,,,,,,,,,,,,,,CTD,,,,,,,,,,,,,,,,,,,,,,,,,,,,1.0867999,CTD,32.005,CTD,,,,,,,,
EMOBON_BPNS_So_230621_meio_1,16.895,CTD,NA,no pH measured,16.795,CTD,ΝΑ,ΝΑ,,,,,,,,,,,,,,,,,,,,,CTD,,,,,,,,,,,,,,,,,,,,,,,,,,,,1.0867999,CTD,32.005,CTD,,,,,,,,
EMOBON_BPNS_So_230621_meio_2,16.895,CTD,NA,no pH measured,16.795,CTD,ΝΑ,ΝΑ,,,,,,,,,,,,,,,,,,,,,CTD,,,,,,,,,,,,,,,,,,,,,,,,,,,,1.0867999,CTD,32.005,CTD,,,,,,,,
EMOBON_BPNS_So_230621_meio_3,16.895,CTD,NA,no pH measured,16.795,CTD,ΝΑ,ΝΑ,,,,,,,,,,,,,,,,,,,,,CTD,,,,,,,,,,,,,,,,,,,,,,,,,,,,1.0867999,CTD,32.005,CTD,,,,,,,,
EMOBON_BPNS_So_230621_meio_4,16.895,CTD,NA,no pH measured,16.795,CTD,ΝΑ,ΝΑ,,,,,,,,,,,,,,,,,,,,,CTD,,,,,,,,,,,,,,,,,,,,,,,,,,,,1.0867999,CTD,32.005,CTD,,,,,,,,
EMOBON_BPNS_So_230621_meio_blank,16.895,CTD,NA,no pH measured,16.795,CTD,ΝΑ,ΝΑ,,,,,,,,,,,,,,,,,,,,,CTD,,,,,,,,,,,,,,,,,,,,,,,,,,,,1.0867999,CTD,32.005,CTD,,,,,,,,
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