{"diffoscope-json-version": 1, "source1": "/srv/reproducible-results/rbuild-debian/r-b-build.HuRALpVI/b1/mdanalysis_2.8.0-4_amd64.changes", "source2": "/srv/reproducible-results/rbuild-debian/r-b-build.HuRALpVI/b2/mdanalysis_2.8.0-4_amd64.changes", "unified_diff": null, "details": [{"source1": "Files", "source2": "Files", "unified_diff": "@@ -1,4 +1,4 @@\n \n- b301f12aa11e13cf3cfc23475753015b 3503852 doc optional python-mdanalysis-doc_2.8.0-4_all.deb\n+ f60284affef13475d3e0ed59d372302d 3503868 doc optional python-mdanalysis-doc_2.8.0-4_all.deb\n 68b88e31f66e40a93b218bc8539c21b4 5845084 debug optional python3-mdanalysis-dbgsym_2.8.0-4_amd64.deb\n dd7274771d94a915a12046d70edf2dc7 4200324 python optional python3-mdanalysis_2.8.0-4_amd64.deb\n"}, {"source1": "python-mdanalysis-doc_2.8.0-4_all.deb", "source2": "python-mdanalysis-doc_2.8.0-4_all.deb", "unified_diff": null, "details": [{"source1": "file list", "source2": "file list", "unified_diff": "@@ -1,3 +1,3 @@\n -rw-r--r-- 0 0 0 4 2025-02-18 00:16:36.000000 debian-binary\n -rw-r--r-- 0 0 0 14044 2025-02-18 00:16:36.000000 control.tar.xz\n--rw-r--r-- 0 0 0 3489616 2025-02-18 00:16:36.000000 data.tar.xz\n+-rw-r--r-- 0 0 0 3489632 2025-02-18 00:16:36.000000 data.tar.xz\n"}, {"source1": "control.tar.xz", "source2": "control.tar.xz", "unified_diff": null, "details": [{"source1": "control.tar", "source2": "control.tar", "unified_diff": null, "details": [{"source1": "./md5sums", "source2": "./md5sums", "unified_diff": null, "details": [{"source1": "./md5sums", "source2": "./md5sums", "comments": ["Files differ"], "unified_diff": null}]}]}]}, {"source1": "data.tar.xz", "source2": "data.tar.xz", "unified_diff": null, "details": [{"source1": "data.tar", "source2": "data.tar", "unified_diff": null, "details": [{"source1": "./usr/share/doc/python-mdanalysis-doc/html/documentation_pages/analysis/wbridge_analysis.html", "source2": "./usr/share/doc/python-mdanalysis-doc/html/documentation_pages/analysis/wbridge_analysis.html", "unified_diff": "@@ -906,23 +906,23 @@\n

Deprecated since version 2.0.0: Will be removed in MDAnalysis 3.0.0. Please use\n results.timeseries instead.

\n \n \n \n
\n
\n-DEFAULT_ACCEPTORS = {'CHARMM27': ('OG1', 'ND1', 'OC1', 'OG', 'OE1', 'SG', 'OW', 'SD', 'OH', 'OC2', 'OH2', 'OD2', 'NE2', 'O', 'OD1', 'OE2'), 'GLYCAM06': ('N', 'OS', 'SM', 'O2', 'O', 'OW', 'NT', 'OY', 'OH'), 'other': ()}\u00b6
\n+DEFAULT_ACCEPTORS = {'CHARMM27': ('ND1', 'OE1', 'OD1', 'OE2', 'OG', 'NE2', 'OG1', 'OW', 'SG', 'O', 'SD', 'OC2', 'OD2', 'OH2', 'OH', 'OC1'), 'GLYCAM06': ('O2', 'OW', 'OS', 'O', 'OY', 'SM', 'OH', 'NT', 'N'), 'other': ()}\u00b6\n

default atom names that are treated as hydrogen acceptors\n (see Default heavy atom names for CHARMM27 force field.);\n use the keyword acceptors to add a list of additional acceptor names.

\n
\n \n
\n
\n-DEFAULT_DONORS = {'CHARMM27': ('OG1', 'ND1', 'NH2', 'N', 'NZ', 'OG', 'OH2', 'NH1', 'NE2', 'NE1', 'SG', 'OW', 'NE', 'ND2', 'OH'), 'GLYCAM06': ('N', 'OW', 'N3', 'NT', 'OH'), 'other': ()}\u00b6
\n+DEFAULT_DONORS = {'CHARMM27': ('ND1', 'OG', 'NH2', 'ND2', 'OW', 'OG1', 'NE', 'SG', 'NH1', 'NE1', 'OH2', 'NZ', 'OH', 'NE2', 'N'), 'GLYCAM06': ('OW', 'N3', 'OH', 'NT', 'N'), 'other': ()}\u00b6\n

default heavy atom names whose hydrogens are treated as donors\n (see Default heavy atom names for CHARMM27 force field.);\n use the keyword donors to add a list of additional donor names.

\n
\n \n
\n
\n", "details": [{"source1": "html2text {}", "source2": "html2text {}", "unified_diff": "@@ -554,24 +554,24 @@\n List of hydrogen bonds between the selection 1 or selection 2 and\n the bridging waters, for each frame.\n Added in version 2.0.0.\n timeseries_\b\u00b6\n Alias to the _\br_\be_\bs_\bu_\bl_\bt_\bs_\b._\bt_\bi_\bm_\be_\bs_\be_\br_\bi_\be_\bs attribute.\n Deprecated since version 2.0.0: Will be removed in MDAnalysis\n 3.0.0. Please use _\br_\be_\bs_\bu_\bl_\bt_\bs_\b._\bt_\bi_\bm_\be_\bs_\be_\br_\bi_\be_\bs instead.\n- DEFAULT_ACCEPTORS =\b= {\b{'\b'C\bCH\bHA\bAR\bRM\bMM\bM2\b27\b7'\b':\b: (\b('\b'O\bOG\bG1\b1'\b',\b, '\b'N\bND\bD1\b1'\b',\b, '\b'O\bOC\bC1\b1'\b',\b, '\b'O\bOG\bG'\b',\b, '\b'O\bOE\bE1\b1'\b',\b,\n- '\b'S\bSG\bG'\b',\b, '\b'O\bOW\bW'\b',\b, '\b'S\bSD\bD'\b',\b, '\b'O\bOH\bH'\b',\b, '\b'O\bOC\bC2\b2'\b',\b, '\b'O\bOH\bH2\b2'\b',\b, '\b'O\bOD\bD2\b2'\b',\b, '\b'N\bNE\bE2\b2'\b',\b, '\b'O\bO'\b',\b, '\b'O\bOD\bD1\b1'\b',\b, '\b'O\bOE\bE2\b2'\b')\b),\b,\n- '\b'G\bGL\bLY\bYC\bCA\bAM\bM0\b06\b6'\b':\b: (\b('\b'N\bN'\b',\b, '\b'O\bOS\bS'\b',\b, '\b'S\bSM\bM'\b',\b, '\b'O\bO2\b2'\b',\b, '\b'O\bO'\b',\b, '\b'O\bOW\bW'\b',\b, '\b'N\bNT\bT'\b',\b, '\b'O\bOY\bY'\b',\b, '\b'O\bOH\bH'\b')\b),\b,\n+ DEFAULT_ACCEPTORS =\b= {\b{'\b'C\bCH\bHA\bAR\bRM\bMM\bM2\b27\b7'\b':\b: (\b('\b'N\bND\bD1\b1'\b',\b, '\b'O\bOE\bE1\b1'\b',\b, '\b'O\bOD\bD1\b1'\b',\b, '\b'O\bOE\bE2\b2'\b',\b, '\b'O\bOG\bG'\b',\b,\n+ '\b'N\bNE\bE2\b2'\b',\b, '\b'O\bOG\bG1\b1'\b',\b, '\b'O\bOW\bW'\b',\b, '\b'S\bSG\bG'\b',\b, '\b'O\bO'\b',\b, '\b'S\bSD\bD'\b',\b, '\b'O\bOC\bC2\b2'\b',\b, '\b'O\bOD\bD2\b2'\b',\b, '\b'O\bOH\bH2\b2'\b',\b, '\b'O\bOH\bH'\b',\b, '\b'O\bOC\bC1\b1'\b')\b),\b,\n+ '\b'G\bGL\bLY\bYC\bCA\bAM\bM0\b06\b6'\b':\b: (\b('\b'O\bO2\b2'\b',\b, '\b'O\bOW\bW'\b',\b, '\b'O\bOS\bS'\b',\b, '\b'O\bO'\b',\b, '\b'O\bOY\bY'\b',\b, '\b'S\bSM\bM'\b',\b, '\b'O\bOH\bH'\b',\b, '\b'N\bNT\bT'\b',\b, '\b'N\bN'\b')\b),\b,\n '\b'o\bot\bth\bhe\ber\br'\b':\b: (\b()\b)}\b}_\b\u00b6\n default atom names that are treated as hydrogen a\bac\bcc\bce\bep\bpt\bto\bor\brs\bs (see\n _\bD_\be_\bf_\ba_\bu_\bl_\bt_\b _\bh_\be_\ba_\bv_\by_\b _\ba_\bt_\bo_\bm_\b _\bn_\ba_\bm_\be_\bs_\b _\bf_\bo_\br_\b _\bC_\bH_\bA_\bR_\bM_\bM_\b2_\b7_\b _\bf_\bo_\br_\bc_\be_\b _\bf_\bi_\be_\bl_\bd_\b.); use the\n keywordacceptorsto add a list of additional acceptor names.\n- DEFAULT_DONORS =\b= {\b{'\b'C\bCH\bHA\bAR\bRM\bMM\bM2\b27\b7'\b':\b: (\b('\b'O\bOG\bG1\b1'\b',\b, '\b'N\bND\bD1\b1'\b',\b, '\b'N\bNH\bH2\b2'\b',\b, '\b'N\bN'\b',\b, '\b'N\bNZ\bZ'\b',\b, '\b'O\bOG\bG'\b',\b,\n- '\b'O\bOH\bH2\b2'\b',\b, '\b'N\bNH\bH1\b1'\b',\b, '\b'N\bNE\bE2\b2'\b',\b, '\b'N\bNE\bE1\b1'\b',\b, '\b'S\bSG\bG'\b',\b, '\b'O\bOW\bW'\b',\b, '\b'N\bNE\bE'\b',\b, '\b'N\bND\bD2\b2'\b',\b, '\b'O\bOH\bH'\b')\b),\b, '\b'G\bGL\bLY\bYC\bCA\bAM\bM0\b06\b6'\b':\b:\n- (\b('\b'N\bN'\b',\b, '\b'O\bOW\bW'\b',\b, '\b'N\bN3\b3'\b',\b, '\b'N\bNT\bT'\b',\b, '\b'O\bOH\bH'\b')\b),\b, '\b'o\bot\bth\bhe\ber\br'\b':\b: (\b()\b)}\b}_\b\u00b6\n+ DEFAULT_DONORS =\b= {\b{'\b'C\bCH\bHA\bAR\bRM\bMM\bM2\b27\b7'\b':\b: (\b('\b'N\bND\bD1\b1'\b',\b, '\b'O\bOG\bG'\b',\b, '\b'N\bNH\bH2\b2'\b',\b, '\b'N\bND\bD2\b2'\b',\b, '\b'O\bOW\bW'\b',\b, '\b'O\bOG\bG1\b1'\b',\b,\n+ '\b'N\bNE\bE'\b',\b, '\b'S\bSG\bG'\b',\b, '\b'N\bNH\bH1\b1'\b',\b, '\b'N\bNE\bE1\b1'\b',\b, '\b'O\bOH\bH2\b2'\b',\b, '\b'N\bNZ\bZ'\b',\b, '\b'O\bOH\bH'\b',\b, '\b'N\bNE\bE2\b2'\b',\b, '\b'N\bN'\b')\b),\b, '\b'G\bGL\bLY\bYC\bCA\bAM\bM0\b06\b6'\b':\b:\n+ (\b('\b'O\bOW\bW'\b',\b, '\b'N\bN3\b3'\b',\b, '\b'O\bOH\bH'\b',\b, '\b'N\bNT\bT'\b',\b, '\b'N\bN'\b')\b),\b, '\b'o\bot\bth\bhe\ber\br'\b':\b: (\b()\b)}\b}_\b\u00b6\n default heavy atom names whose hydrogens are treated as d\bdo\bon\bno\bor\brs\bs (see\n _\bD_\be_\bf_\ba_\bu_\bl_\bt_\b _\bh_\be_\ba_\bv_\by_\b _\ba_\bt_\bo_\bm_\b _\bn_\ba_\bm_\be_\bs_\b _\bf_\bo_\br_\b _\bC_\bH_\bA_\bR_\bM_\bM_\b2_\b7_\b _\bf_\bo_\br_\bc_\be_\b _\bf_\bi_\be_\bl_\bd_\b.); use the\n keyworddonorsto add a list of additional donor names.\n count_by_time(a\ban\bna\bal\bly\bys\bsi\bis\bs_\b_f\bfu\bun\bnc\bc=\b=N\bNo\bon\bne\be, *\b**\b*k\bkw\bwa\bar\brg\bgs\bs)_\b[_\bs_\bo_\bu_\br_\bc_\be_\b]_\b\u00b6\n Counts the number of water bridges per timestep.\n The counting behaviour can be adjusted by supplying analysis_func.\n See _\bU_\bs_\be_\b _\bc_\bo_\bu_\bn_\bt_\b__\bb_\by_\b__\bt_\bi_\bm_\be for details.\n"}]}]}]}]}]}