Running 'testthat.R' [14m]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(pmparser)
  > 
  > test_check('pmparser')
  trying URL 'ftp://ftp.ncbi.nlm.nih.gov/pubmed//baseline/pubmed23n1166.xml.gz.md5'
  Content type 'unknown' length 60 bytes
  ==================================================
  trying URL 'ftp://ftp.ncbi.nlm.nih.gov/pubmed/baseline/pubmed23n1166.xml.gz'
  Content type 'unknown' length 23756263 bytes (22.7 MB)
  ==================================================
  trying URL 'ftp://ftp.ncbi.nlm.nih.gov/pubmed//baseline/pubmed23n1166.xml.gz.md5'
  Content type 'unknown' length 60 bytes
  ==================================================
  trying URL 'ftp://ftp.ncbi.nlm.nih.gov/pubmed/baseline/pubmed23n1166.xml.gz'
  Content type 'unknown' length 23756263 bytes (22.7 MB)
  ==================================================
  [ FAIL 51 | WARN 0 | SKIP 4 | PASS 136 ]
  
  ══ Skipped tests ═══════════════════════════════════════════════════════════════
  • On CRAN (4)
  
  ══ Failed tests ════════════════════════════════════════════════════════════════
  ── Failure ('test_modify_pubmed_db_std.R:32'): modifyPubmedDb create matches standard ──
  abstract not equal to DBI::dbReadTable(conExp, tableName).
  Attributes: < Component "row.names": Numeric: lengths (20847, 57) differ >
  Component "pmid": Numeric: lengths (20847, 57) differ
  Component "text": Lengths (20847, 57) differ (string compare on first 57)
  Component "text": 57 string mismatches
  Component "label": Lengths (20847, 57) differ (string compare on first 57)
  Component "label": 'is.NA' value mismatch: 18 in current 11 in target
  Component "nlm_category": Lengths (20847, 57) differ (string compare on first 57)
  Component "nlm_category": 'is.NA' value mismatch: 30 in current 11 in target
  Component "abstract_pos": Numeric: lengths (20847, 57) differ
  ── Failure ('test_modify_pubmed_db_std.R:32'): modifyPubmedDb create matches standard ──
  abstract_copyright not equal to DBI::dbReadTable(conExp, tableName).
  Attributes: < Component "row.names": Numeric: lengths (7392, 19) differ >
  Component "pmid": Numeric: lengths (7392, 19) differ
  Component "copyright": Lengths (7392, 19) differ (string compare on first 19)
  Component "copyright": 19 string mismatches
  ── Failure ('test_modify_pubmed_db_std.R:32'): modifyPubmedDb create matches standard ──
  article not equal to DBI::dbReadTable(conExp, tableName).
  Attributes: < Component "row.names": Numeric: lengths (10710, 28) differ >
  Component "pmid": Numeric: lengths (10710, 28) differ
  Component "title": Lengths (10710, 28) differ (string compare on first 28)
  Component "title": 28 string mismatches
  Component "pub_date": Numeric: lengths (10710, 28) differ
  Component "pub_model": Lengths (10710, 28) differ (string compare on first 28)
  Component "pub_model": 12 string mismatches
  ── Failure ('test_modify_pubmed_db_std.R:32'): modifyPubmedDb create matches standard ──
  article_id not equal to DBI::dbReadTable(conExp, tableName).
  Attributes: < Component "row.names": Numeric: lengths (15050, 38) differ >
  Component "pmid": Numeric: lengths (15050, 38) differ
  Component "id_type": Lengths (15050, 38) differ (string compare on first 38)
  Component "id_type": 10 string mismatches
  Component "id_value": Lengths (15050, 38) differ (string compare on first 38)
  Component "id_value": 38 string mismatches
  ── Failure ('test_modify_pubmed_db_std.R:32'): modifyPubmedDb create matches standard ──
  author not equal to DBI::dbReadTable(conExp, tableName).
  Attributes: < Component "row.names": Numeric: lengths (66920, 197) differ >
  Component "pmid": Numeric: lengths (66920, 197) differ
  Component "author_pos": Numeric: lengths (66920, 197) differ
  Component "last_name": Lengths (66920, 197) differ (string compare on first 197)
  Component "last_name": 'is.NA' value mismatch: 3 in current 0 in target
  Component "fore_name": Lengths (66920, 197) differ (string compare on first 197)
  Component "fore_name": 'is.NA' value mismatch: 3 in current 0 in target
  Component "initials": Lengths (66920, 197) differ (string compare on first 197)
  Component "initials": 'is.NA' value mismatch: 3 in current 0 in target
  ...
  ── Failure ('test_modify_pubmed_db_std.R:32'): modifyPubmedDb create matches standard ──
  author_affiliation not equal to DBI::dbReadTable(conExp, tableName).
  Attributes: < Component "row.names": Numeric: lengths (79745, 218) differ >
  Component "pmid": Numeric: lengths (79745, 218) differ
  Component "author_pos": Numeric: lengths (79745, 218) differ
  Component "affiliation_pos": Numeric: lengths (79745, 218) differ
  Component "affiliation": Lengths (79745, 218) differ (string compare on first 218)
  Component "affiliation": 218 string mismatches
  ── Failure ('test_modify_pubmed_db_std.R:32'): modifyPubmedDb create matches standard ──
  author_affiliation_identifier not equal to DBI::dbReadTable(conExp, tableName).
  Attributes: < Component "row.names": Numeric: lengths (3808, 0) differ >
  Component "pmid": Numeric: lengths (3808, 0) differ
  Component "author_pos": Numeric: lengths (3808, 0) differ
  Component "affiliation_pos": Numeric: lengths (3808, 0) differ
  Component "source": Lengths (3808, 0) differ (string compare on first 0)
  Component "identifier": Lengths (3808, 0) differ (string compare on first 0)
  ── Failure ('test_modify_pubmed_db_std.R:32'): modifyPubmedDb create matches standard ──
  author_identifier not equal to DBI::dbReadTable(conExp, tableName).
  Attributes: < Component "row.names": Numeric: lengths (10032, 18) differ >
  Component "pmid": Numeric: lengths (10032, 18) differ
  Component "author_pos": Numeric: lengths (10032, 18) differ
  Component "source": Lengths (10032, 18) differ (string compare on first 18)
  Component "identifier": Lengths (10032, 18) differ (string compare on first 18)
  Component "identifier": 18 string mismatches
  ── Failure ('test_modify_pubmed_db_std.R:32'): modifyPubmedDb create matches standard ──
  author_list not equal to DBI::dbReadTable(conExp, tableName).
  Attributes: < Component "row.names": Numeric: lengths (10580, 28) differ >
  Component "pmid": Numeric: lengths (10580, 28) differ
  Component "complete": Lengths (10580, 28) differ (string compare on first 28)
  ── Failure ('test_modify_pubmed_db_std.R:32'): modifyPubmedDb create matches standard ──
  chemical not equal to DBI::dbReadTable(conExp, tableName).
  Attributes: < Component "row.names": Numeric: lengths (2075, 0) differ >
  Component "pmid": Numeric: lengths (2075, 0) differ
  Component "registry_number": Lengths (2075, 0) differ (string compare on first 0)
  Component "substance_name": Lengths (2075, 0) differ (string compare on first 0)
  Component "substance_ui": Lengths (2075, 0) differ (string compare on first 0)
  ── Failure ('test_modify_pubmed_db_std.R:32'): modifyPubmedDb create matches standard ──
  comment not equal to DBI::dbReadTable(conExp, tableName).
  Attributes: < Component "row.names": Numeric: lengths (250, 3) differ >
  Component "pmid": Numeric: lengths (250, 3) differ
  Component "ref_type": Lengths (250, 3) differ (string compare on first 3)
  Component "ref_type": 3 string mismatches
  Component "ref_pmid": Numeric: lengths (250, 3) differ
  ── Failure ('test_modify_pubmed_db_std.R:32'): modifyPubmedDb create matches standard ──
  data_bank not equal to DBI::dbReadTable(conExp, tableName).
  Attributes: < Component "row.names": Numeric: lengths (214, 4) differ >
  Component "pmid": Numeric: lengths (214, 4) differ
  Component "data_bank_name": Lengths (214, 4) differ (string compare on first 4)
  Component "data_bank_name": 3 string mismatches
  Component "accession_number": Lengths (214, 4) differ (string compare on first 4)
  Component "accession_number": 4 string mismatches
  ── Failure ('test_modify_pubmed_db_std.R:32'): modifyPubmedDb create matches standard ──
  grant_item not equal to DBI::dbReadTable(conExp, tableName).
  Attributes: < Component "row.names": Numeric: lengths (2770, 16) differ >
  Component "pmid": Numeric: lengths (2770, 16) differ
  Component "grant_id": Lengths (2770, 16) differ (string compare on first 16)
  Component "grant_id": 'is.NA' value mismatch: 0 in current 5 in target
  Component "acronym": Lengths (2770, 16) differ (string compare on first 16)
  Component "acronym": 'is.NA' value mismatch: 13 in current 16 in target
  Component "agency": Lengths (2770, 16) differ (string compare on first 16)
  Component "agency": 16 string mismatches
  Component "country": Lengths (2770, 16) differ (string compare on first 16)
  ...
  ── Failure ('test_modify_pubmed_db_std.R:32'): modifyPubmedDb create matches standard ──
  grant_list not equal to DBI::dbReadTable(conExp, tableName).
  Attributes: < Component "row.names": Numeric: lengths (1042, 6) differ >
  Component "pmid": Numeric: lengths (1042, 6) differ
  Component "complete": Lengths (1042, 6) differ (string compare on first 6)
  ── Failure ('test_modify_pubmed_db_std.R:32'): modifyPubmedDb create matches standard ──
  investigator not equal to DBI::dbReadTable(conExp, tableName).
  Attributes: < Component "row.names": Numeric: lengths (1434, 27) differ >
  Component "pmid": Numeric: lengths (1434, 27) differ
  Component "investigator_pos": Numeric: lengths (1434, 27) differ
  Component "last_name": Lengths (1434, 27) differ (string compare on first 27)
  Component "last_name": 27 string mismatches
  Component "fore_name": Lengths (1434, 27) differ (string compare on first 27)
  Component "fore_name": 27 string mismatches
  Component "initials": Lengths (1434, 27) differ (string compare on first 27)
  Component "initials": 26 string mismatches
  ...
  ── Failure ('test_modify_pubmed_db_std.R:32'): modifyPubmedDb create matches standard ──
  investigator_affiliation not equal to DBI::dbReadTable(conExp, tableName).
  Attributes: < Component "row.names": Numeric: lengths (73, 0) differ >
  Component "pmid": Numeric: lengths (73, 0) differ
  Component "investigator_pos": Numeric: lengths (73, 0) differ
  Component "affiliation_pos": Numeric: lengths (73, 0) differ
  Component "affiliation": Lengths (73, 0) differ (string compare on first 0)
  ── Failure ('test_modify_pubmed_db_std.R:32'): modifyPubmedDb create matches standard ──
  journal not equal to DBI::dbReadTable(conExp, tableName).
  Attributes: < Component "row.names": Numeric: lengths (10710, 28) differ >
  Component "pmid": Numeric: lengths (10710, 28) differ
  Component "journal_name": Lengths (10710, 28) differ (string compare on first 28)
  Component "journal_name": 28 string mismatches
  Component "journal_iso": Lengths (10710, 28) differ (string compare on first 28)
  Component "journal_iso": 28 string mismatches
  Component "pub_date": Numeric: lengths (10710, 28) differ
  Component "pub_year": Lengths (10710, 28) differ (string compare on first 28)
  Component "pub_year": 28 string mismatches
  ...
  ── Failure ('test_modify_pubmed_db_std.R:32'): modifyPubmedDb create matches standard ──
  keyword_item not equal to DBI::dbReadTable(conExp, tableName).
  Attributes: < Component "row.names": Numeric: lengths (41142, 102) differ >
  Component "pmid": Numeric: lengths (41142, 102) differ
  Component "keyword_name": Lengths (41142, 102) differ (string compare on first 102)
  Component "keyword_name": 102 string mismatches
  Component "major_topic": Lengths (41142, 102) differ (string compare on first 102)
  Component "major_topic": 6 string mismatches
  ── Failure ('test_modify_pubmed_db_std.R:32'): modifyPubmedDb create matches standard ──
  keyword_list not equal to DBI::dbReadTable(conExp, tableName).
  Attributes: < Component "row.names": Numeric: lengths (7781, 20) differ >
  Component "pmid": Numeric: lengths (7781, 20) differ
  Component "list_owner": Lengths (7781, 20) differ (string compare on first 20)
  ── Failure ('test_modify_pubmed_db_std.R:32'): modifyPubmedDb create matches standard ──
  mesh_descriptor not equal to DBI::dbReadTable(conExp, tableName).
  Attributes: < Component "row.names": Numeric: lengths (11553, 0) differ >
  Component "pmid": Numeric: lengths (11553, 0) differ
  Component "descriptor_pos": Lengths (11553, 0) differ (string compare on first 0)
  Component "descriptor_name": Lengths (11553, 0) differ (string compare on first 0)
  Component "descriptor_ui": Lengths (11553, 0) differ (string compare on first 0)
  Component "descriptor_major_topic": Lengths (11553, 0) differ (string compare on first 0)
  ── Failure ('test_modify_pubmed_db_std.R:32'): modifyPubmedDb create matches standard ──
  mesh_list not equal to DBI::dbReadTable(conExp, tableName).
  Attributes: < Component "row.names": Numeric: lengths (1659, 0) differ >
  Component "pmid": Numeric: lengths (1659, 0) differ
  Component "indexing_method": Lengths (1659, 0) differ (string compare on first 0)
  ── Failure ('test_modify_pubmed_db_std.R:32'): modifyPubmedDb create matches standard ──
  mesh_qualifier not equal to DBI::dbReadTable(conExp, tableName).
  Attributes: < Component "row.names": Numeric: lengths (3968, 0) differ >
  Component "pmid": Numeric: lengths (3968, 0) differ
  Component "descriptor_pos": Lengths (3968, 0) differ (string compare on first 0)
  Component "qualifier_name": Lengths (3968, 0) differ (string compare on first 0)
  Component "qualifier_ui": Lengths (3968, 0) differ (string compare on first 0)
  Component "qualifier_major_topic": Lengths (3968, 0) differ (string compare on first 0)
  ── Failure ('test_modify_pubmed_db_std.R:32'): modifyPubmedDb create matches standard ──
  other_abstract not equal to DBI::dbReadTable(conExp, tableName).
  Attributes: < Component "row.names": Numeric: lengths (216, 2) differ >
  Component "pmid": Numeric: lengths (216, 2) differ
  Component "text": Lengths (216, 2) differ (string compare on first 2)
  Component "text": 2 string mismatches
  Component "type": Lengths (216, 2) differ (string compare on first 2)
  Component "type": 1 string mismatch
  Component "language": Lengths (216, 2) differ (string compare on first 2)
  Component "language": 2 string mismatches
  ── Failure ('test_modify_pubmed_db_std.R:32'): modifyPubmedDb create matches standard ──
  pmid_status not equal to DBI::dbReadTable(conExp, tableName).
  Attributes: < Component "row.names": Numeric: lengths (10710, 28) differ >
  Component "pmid": Numeric: lengths (10710, 28) differ
  Component "version": Numeric: lengths (10710, 28) differ
  Component "xml_filename": Lengths (10710, 28) differ (string compare on first 28)
  Component "xml_filename": 28 string mismatches
  Component "status": Lengths (10710, 28) differ (string compare on first 28)
  Component "status": 15 string mismatches
  ── Failure ('test_modify_pubmed_db_std.R:32'): modifyPubmedDb create matches standard ──
  pub_history not equal to DBI::dbReadTable(conExp, tableName).
  Attributes: < Component "row.names": Numeric: lengths (50281, 127) differ >
  Component "pmid": Numeric: lengths (50281, 127) differ
  Component "pub_status": Lengths (50281, 127) differ (string compare on first 127)
  Component "pub_status": 91 string mismatches
  Component "pub_date": Numeric: lengths (50281, 127) differ
  ── Failure ('test_modify_pubmed_db_std.R:32'): modifyPubmedDb create matches standard ──
  pub_type not equal to DBI::dbReadTable(conExp, tableName).
  Attributes: < Component "row.names": Numeric: lengths (12429, 30) differ >
  Component "pmid": Numeric: lengths (12429, 30) differ
  Component "type_name": Lengths (12429, 30) differ (string compare on first 30)
  Component "type_name": 13 string mismatches
  Component "type_id": Lengths (12429, 30) differ (string compare on first 30)
  Component "type_id": 13 string mismatches
  ── Failure ('test_modify_pubmed_db_std.R:32'): modifyPubmedDb create matches standard ──
  readme not equal to DBI::dbReadTable(conExp, tableName).
  Component "text": 1 string mismatch
  ── Failure ('test_modify_pubmed_db_std.R:52'): modifyPubmedDb update matches standard ──
  abstract not equal to DBI::dbReadTable(conExp, tableName).
  Attributes: < Component "row.names": Numeric: lengths (57, 117) differ >
  Component "pmid": Numeric: lengths (57, 117) differ
  Component "text": Lengths (57, 117) differ (string compare on first 57)
  Component "label": Lengths (57, 117) differ (string compare on first 57)
  Component "nlm_category": Lengths (57, 117) differ (string compare on first 57)
  Component "abstract_pos": Numeric: lengths (57, 117) differ
  ── Failure ('test_modify_pubmed_db_std.R:52'): modifyPubmedDb update matches standard ──
  abstract_copyright not equal to DBI::dbReadTable(conExp, tableName).
  Attributes: < Component "row.names": Numeric: lengths (19, 34) differ >
  Component "pmid": Numeric: lengths (19, 34) differ
  Component "copyright": Lengths (19, 34) differ (string compare on first 19)
  ── Failure ('test_modify_pubmed_db_std.R:52'): modifyPubmedDb update matches standard ──
  article not equal to DBI::dbReadTable(conExp, tableName).
  Attributes: < Component "row.names": Numeric: lengths (28, 58) differ >
  Component "pmid": Numeric: lengths (28, 58) differ
  Component "title": Lengths (28, 58) differ (string compare on first 28)
  Component "pub_date": Numeric: lengths (28, 58) differ
  Component "pub_model": Lengths (28, 58) differ (string compare on first 28)
  ── Failure ('test_modify_pubmed_db_std.R:52'): modifyPubmedDb update matches standard ──
  article_id not equal to DBI::dbReadTable(conExp, tableName).
  Attributes: < Component "row.names": Numeric: lengths (38, 76) differ >
  Component "pmid": Numeric: lengths (38, 76) differ
  Component "id_type": Lengths (38, 76) differ (string compare on first 38)
  Component "id_value": Lengths (38, 76) differ (string compare on first 38)
  ── Failure ('test_modify_pubmed_db_std.R:52'): modifyPubmedDb update matches standard ──
  author not equal to DBI::dbReadTable(conExp, tableName).
  Attributes: < Component "row.names": Numeric: lengths (197, 386) differ >
  Component "pmid": Numeric: lengths (197, 386) differ
  Component "author_pos": Numeric: lengths (197, 386) differ
  Component "last_name": Lengths (197, 386) differ (string compare on first 197)
  Component "fore_name": Lengths (197, 386) differ (string compare on first 197)
  Component "initials": Lengths (197, 386) differ (string compare on first 197)
  Component "suffix": Lengths (197, 386) differ (string compare on first 197)
  Component "valid": Lengths (197, 386) differ (string compare on first 197)
  Component "equal_contrib": Lengths (197, 386) differ (string compare on first 197)
  ...
  ── Failure ('test_modify_pubmed_db_std.R:52'): modifyPubmedDb update matches standard ──
  author_affiliation not equal to DBI::dbReadTable(conExp, tableName).
  Attributes: < Component "row.names": Numeric: lengths (218, 453) differ >
  Component "pmid": Numeric: lengths (218, 453) differ
  Component "author_pos": Numeric: lengths (218, 453) differ
  Component "affiliation_pos": Numeric: lengths (218, 453) differ
  Component "affiliation": Lengths (218, 453) differ (string compare on first 218)
  ── Failure ('test_modify_pubmed_db_std.R:52'): modifyPubmedDb update matches standard ──
  author_identifier not equal to DBI::dbReadTable(conExp, tableName).
  Attributes: < Component "row.names": Numeric: lengths (18, 60) differ >
  Component "pmid": Numeric: lengths (18, 60) differ
  Component "author_pos": Numeric: lengths (18, 60) differ
  Component "source": Lengths (18, 60) differ (string compare on first 18)
  Component "identifier": Lengths (18, 60) differ (string compare on first 18)
  ── Failure ('test_modify_pubmed_db_std.R:52'): modifyPubmedDb update matches standard ──
  author_list not equal to DBI::dbReadTable(conExp, tableName).
  Attributes: < Component "row.names": Numeric: lengths (28, 58) differ >
  Component "pmid": Numeric: lengths (28, 58) differ
  Component "complete": Lengths (28, 58) differ (string compare on first 28)
  ── Failure ('test_modify_pubmed_db_std.R:52'): modifyPubmedDb update matches standard ──
  chemical not equal to DBI::dbReadTable(conExp, tableName).
  Attributes: < Component "row.names": Numeric: lengths (0, 44) differ >
  Component "pmid": Numeric: lengths (0, 44) differ
  Component "registry_number": Lengths (0, 44) differ (string compare on first 0)
  Component "substance_name": Lengths (0, 44) differ (string compare on first 0)
  Component "substance_ui": Lengths (0, 44) differ (string compare on first 0)
  ── Failure ('test_modify_pubmed_db_std.R:52'): modifyPubmedDb update matches standard ──
  comment not equal to DBI::dbReadTable(conExp, tableName).
  Attributes: < Component "row.names": Numeric: lengths (3, 8) differ >
  Component "pmid": Numeric: lengths (3, 8) differ
  Component "ref_type": Lengths (3, 8) differ (string compare on first 3)
  Component "ref_pmid": Numeric: lengths (3, 8) differ
  ── Failure ('test_modify_pubmed_db_std.R:52'): modifyPubmedDb update matches standard ──
  data_bank not equal to DBI::dbReadTable(conExp, tableName).
  Attributes: < Component "row.names": Numeric: lengths (4, 6) differ >
  Component "pmid": Numeric: lengths (4, 6) differ
  Component "data_bank_name": Lengths (4, 6) differ (string compare on first 4)
  Component "accession_number": Lengths (4, 6) differ (string compare on first 4)
  ── Failure ('test_modify_pubmed_db_std.R:52'): modifyPubmedDb update matches standard ──
  grant_item not equal to DBI::dbReadTable(conExp, tableName).
  Attributes: < Component "row.names": Numeric: lengths (16, 34) differ >
  Component "pmid": Numeric: lengths (16, 34) differ
  Component "grant_id": Lengths (16, 34) differ (string compare on first 16)
  Component "acronym": Lengths (16, 34) differ (string compare on first 16)
  Component "agency": Lengths (16, 34) differ (string compare on first 16)
  Component "country": Lengths (16, 34) differ (string compare on first 16)
  ── Failure ('test_modify_pubmed_db_std.R:52'): modifyPubmedDb update matches standard ──
  grant_list not equal to DBI::dbReadTable(conExp, tableName).
  Attributes: < Component "row.names": Numeric: lengths (6, 12) differ >
  Component "pmid": Numeric: lengths (6, 12) differ
  Component "complete": Lengths (6, 12) differ (string compare on first 6)
  ── Failure ('test_modify_pubmed_db_std.R:52'): modifyPubmedDb update matches standard ──
  investigator not equal to DBI::dbReadTable(conExp, tableName).
  Attributes: < Component "row.names": Numeric: lengths (27, 54) differ >
  Component "pmid": Numeric: lengths (27, 54) differ
  Component "investigator_pos": Numeric: lengths (27, 54) differ
  Component "last_name": Lengths (27, 54) differ (string compare on first 27)
  Component "fore_name": Lengths (27, 54) differ (string compare on first 27)
  Component "initials": Lengths (27, 54) differ (string compare on first 27)
  Component "suffix": Lengths (27, 54) differ (string compare on first 27)
  Component "valid": Lengths (27, 54) differ (string compare on first 27)
  ── Failure ('test_modify_pubmed_db_std.R:52'): modifyPubmedDb update matches standard ──
  journal not equal to DBI::dbReadTable(conExp, tableName).
  Attributes: < Component "row.names": Numeric: lengths (28, 58) differ >
  Component "pmid": Numeric: lengths (28, 58) differ
  Component "journal_name": Lengths (28, 58) differ (string compare on first 28)
  Component "journal_iso": Lengths (28, 58) differ (string compare on first 28)
  Component "pub_date": Numeric: lengths (28, 58) differ
  Component "pub_year": Lengths (28, 58) differ (string compare on first 28)
  Component "pub_month": Lengths (28, 58) differ (string compare on first 28)
  Component "pub_day": Lengths (28, 58) differ (string compare on first 28)
  Component "medline_date": Lengths (28, 58) differ (string compare on first 28)
  ...
  ── Failure ('test_modify_pubmed_db_std.R:52'): modifyPubmedDb update matches standard ──
  keyword_item not equal to DBI::dbReadTable(conExp, tableName).
  Attributes: < Component "row.names": Numeric: lengths (102, 195) differ >
  Component "pmid": Numeric: lengths (102, 195) differ
  Component "keyword_name": Lengths (102, 195) differ (string compare on first 102)
  Component "major_topic": Lengths (102, 195) differ (string compare on first 102)
  ── Failure ('test_modify_pubmed_db_std.R:52'): modifyPubmedDb update matches standard ──
  keyword_list not equal to DBI::dbReadTable(conExp, tableName).
  Attributes: < Component "row.names": Numeric: lengths (20, 39) differ >
  Component "pmid": Numeric: lengths (20, 39) differ
  Component "list_owner": Lengths (20, 39) differ (string compare on first 20)
  ── Failure ('test_modify_pubmed_db_std.R:52'): modifyPubmedDb update matches standard ──
  mesh_descriptor not equal to DBI::dbReadTable(conExp, tableName).
  Attributes: < Component "row.names": Numeric: lengths (0, 256) differ >
  Component "pmid": Numeric: lengths (0, 256) differ
  Component "descriptor_pos": Lengths (0, 256) differ (string compare on first 0)
  Component "descriptor_name": Lengths (0, 256) differ (string compare on first 0)
  Component "descriptor_ui": Lengths (0, 256) differ (string compare on first 0)
  Component "descriptor_major_topic": Lengths (0, 256) differ (string compare on first 0)
  ── Failure ('test_modify_pubmed_db_std.R:52'): modifyPubmedDb update matches standard ──
  mesh_list not equal to DBI::dbReadTable(conExp, tableName).
  Attributes: < Component "row.names": Numeric: lengths (0, 13) differ >
  Component "pmid": Numeric: lengths (0, 13) differ
  Component "indexing_method": Lengths (0, 13) differ (string compare on first 0)
  ── Failure ('test_modify_pubmed_db_std.R:52'): modifyPubmedDb update matches standard ──
  mesh_qualifier not equal to DBI::dbReadTable(conExp, tableName).
  Attributes: < Component "row.names": Numeric: lengths (0, 152) differ >
  Component "pmid": Numeric: lengths (0, 152) differ
  Component "descriptor_pos": Lengths (0, 152) differ (string compare on first 0)
  Component "qualifier_name": Lengths (0, 152) differ (string compare on first 0)
  Component "qualifier_ui": Lengths (0, 152) differ (string compare on first 0)
  Component "qualifier_major_topic": Lengths (0, 152) differ (string compare on first 0)
  ── Failure ('test_modify_pubmed_db_std.R:52'): modifyPubmedDb update matches standard ──
  other_abstract not equal to DBI::dbReadTable(conExp, tableName).
  Attributes: < Component "row.names": Numeric: lengths (2, 4) differ >
  Component "pmid": Numeric: lengths (2, 4) differ
  Component "text": Lengths (2, 4) differ (string compare on first 2)
  Component "type": Lengths (2, 4) differ (string compare on first 2)
  Component "language": Lengths (2, 4) differ (string compare on first 2)
  ── Failure ('test_modify_pubmed_db_std.R:52'): modifyPubmedDb update matches standard ──
  pmid_status not equal to DBI::dbReadTable(conExp, tableName).
  Attributes: < Component "row.names": Numeric: lengths (28, 106) differ >
  Component "pmid": Numeric: lengths (28, 106) differ
  Component "version": Numeric: lengths (28, 106) differ
  Component "xml_filename": Lengths (28, 106) differ (string compare on first 28)
  Component "status": Lengths (28, 106) differ (string compare on first 28)
  ── Failure ('test_modify_pubmed_db_std.R:52'): modifyPubmedDb update matches standard ──
  pub_history not equal to DBI::dbReadTable(conExp, tableName).
  Attributes: < Component "row.names": Numeric: lengths (127, 254) differ >
  Component "pmid": Numeric: lengths (127, 254) differ
  Component "pub_status": Lengths (127, 254) differ (string compare on first 127)
  Component "pub_date": Numeric: lengths (127, 254) differ
  ── Failure ('test_modify_pubmed_db_std.R:52'): modifyPubmedDb update matches standard ──
  pub_type not equal to DBI::dbReadTable(conExp, tableName).
  Attributes: < Component "row.names": Numeric: lengths (30, 79) differ >
  Component "pmid": Numeric: lengths (30, 79) differ
  Component "type_name": Lengths (30, 79) differ (string compare on first 30)
  Component "type_id": Lengths (30, 79) differ (string compare on first 30)
  
  [ FAIL 51 | WARN 0 | SKIP 4 | PASS 136 ]
  Error: Test failures
  In addition: Warning message:
  call dbDisconnect() when finished working with a connection 
  Execution halted